Tissue-Specific MicroRNAs and Compositions and Uses Thereof

ABSTRACT

The invention provides for isolated nucleic acid sequences of newly discovered micro RNAs that have been identified to exist in normal Human B cells and/or in tumor-related Human B cells, using an integrated bioinformatics method and pipeline described herein.

This application is a Continuation-In-Part of International Patent Application No. PCT/US2008/070082, filed Jul. 15, 2008, which claims priority of U.S. Provisional Patent Application No. 60/950,474, filed Jul. 18, 2007, and of U.S. Provisional Patent Application No. 61/020,625, filed Jan. 11, 2008 each of which is incorporated herewith in its entirety.

All patents, patent applications and publications cited herein are hereby incorporated by reference in their entirety. The disclosures of these publications in their entireties are hereby incorporated by reference into this application in order to more fully describe the state of the art as known to those skilled therein as of the date of the invention described and claimed herein.

This patent disclosure contains material that is subject to copyright protection. The copyright owner has no objection to the facsimile reproduction by anyone of the patent document or the patent disclosure as it appears in the U.S. Patent and Trademark Office patent file or records, but otherwise reserves any and all copyright rights.

GOVERNMENT INTERESTS

The work described herein was supported in whole, or in part, by National Cancer Institute Grant No. R01-CA109755 “Genetic Network Interference with Combinatorial Phenotypes”, and National Institute of Allergy and Infectious Diseases Grant No. R01 AI066116 “Regulatory Modules in Normal and Transformed b-Cell”. Thus, the United States Government has certain rights to the invention.

SEQUENCE LISTING

The instant application contains a Sequence Listing which has been submitted via EFS-Web and is hereby incorporated by reference in its entirety. Said ASCII copy, created on Mar. 17, 2010, is named 19240US3.txt, and is 1,134,968 bytes in size.

LENGTHY TABLE

A lengthy table (for example, Table 11) is referenced in this application and has been filed as an Appendix to this invention. The specification of the application contains reference to the single table, Table 11, which consists of more than 51 pages, and is hereby incorporated by reference in its entirety. Table 11 contains information encompassing gene sequences pertaining to the analysis of cross-species conservation for miRNAs. The Table displays results for conservation of full-length mature miRNA sequences, and seed of the mature sequence.

BACKGROUND OF THE INVENTION

Various nucleic acid species are capable of modifying gene expression. These species include antisense RNA, siRNA, microRNA, RNA and DNA aptamers, anatgomirs, and decoy RNAs. Each of these nucleic acid species can inhibit target nucleic acid activity, including gene expression.

MicroRNAs (miRNAs, miR5) are 20-23 nucleotides (nt) RNA molecules that are produced by the processing of a larger enclosing stem-loop structure (>50 bp), called precursors, by cellular enzymes. miRNAs are processed from hairpin precursors of 70 nt (pre-miRNA) which are derived from primary transcripts (pri-miRNA) through sequential cleavage by the RNAse III enzymes drosha and dicer. miRNAs target the messenger RNA of other genes by binding to their 3′ UTR and interfering with their translation or causing degradation by enzyme targeting double-stranded RNA. miRNAs are non-coding RNAs (ncRNAs) that exist in a variety of organisms, including mammals, and are conserved in evolution. Many miRNAs tend to be clustered and transcribed as polycistrons and often have similar spatial temporal expression patterns. miRNAs have been implicated in various biological processes including developmental timing, differentiation, apoptosis, cell proliferation, organ development, and metabolism

SUMMARY OF THE INVENTION

The invention is based, at least in part, on the discovery of newly-identified microRNAs from normal and tumor-related Human B cells. Accordingly, in one aspect, the invention features an isolated nucleic acid, wherein the nucleic acid: (a) consists of from about 14 to about 31 nucleotides in length; (b) exhibits expression in a human tissue; (c) has a nucleotide sequence not present in an exon; and (d) consists essentially of a nucleotide sequence selected from the group consisting of SEQ ID NOS: 1-130 and 1094, and a nucleotide sequence which is about 97%, about 98%, or about 99% identical to a nucleic acid sequence comprising any one of SEQ ID NOS: 1-130 and 1094. In one embodiment, the nucleic acid is single stranded. In another embodiment, the nucleic acid is double-stranded. In a further embodiment, the human tissue comprises a lymphocyte. In some embodiments, the human tissue is a B cell. In other embodiments, the B cell comprises a Naïve B cell, a centroblast, a memory B cell, or a Ramos Burkitt Lymphoma cell.

An aspect of the invention provides for an isolated nucleic acid, wherein the nucleic acid: (a) consists of from about 14 to about 31 nucleotides in length; (b) exhibits expression in a human tissue; (c) has a nucleotide sequence not present in an exon; and (d) consists essentially of a nucleotide sequence selected from the group consisting of SEQ ID NOS: 131-401, and a nucleotide sequence which is about 97%, about 98%, or about 99% identical to a nucleic acid sequence having a SEQ ID NO: 131-401. In one embodiment, the nucleic acid is single stranded. In another embodiment, the nucleic acid is double-stranded. In a further embodiment, the human tissue comprises a lymphocyte. In some embodiments, the human tissue is a B cell. In other embodiments, the B cell comprises a Naïve B cell, a centroblast, a memory B cell, or a Ramos Burkitt Lymphoma cell.

The invention provides for an isolated nucleic acid that is complementary to a nucleic acid described in the aspects herein. In one embodiment, the nucleic acid is single stranded. In another embodiment, the nucleic acid is double-stranded.

The invention provides for an isolated nucleic acid that is complementary to all but 1, 2, 3, 4, or 5 nucleotides of the nucleic acids described in the aspects herein. In one embodiment, the nucleic acid is complementary to at least 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, or 31 contiguous nucleotides of a nucleic acid described in the aspects herein consisting from about 14 to about 31 nucleotides in length. In one embodiment, the nucleic acid is single stranded. In another embodiment, the nucleic acid is double-stranded.

The invention provides for a composition comprising one or more nucleic acids of described in the apsects herein, in any combination or permutation thereof. In one embodiment, the composition further comprises one or more carriers, excipients, solvents, bases, or a combination thereof.

The invention provides for a composition comprising one or more nucleic acids,

wherein the one or more nucleic acids consist essentially of a nucleotide sequence of any one of SEQ ID NOS: 1-401 and 1094. In one embodiment, the composition further comprises one or more carriers, excipients, solvents, bases, or a combination thereof.

The invention provides for a method for modulating the activity of a target nucleic acid in a cell, wherein the method comprises contacting a cell with a nucleic acid described in the aspects herein. In one embodiment, the target nucleic acid is a mRNA, a mature miRNA, or a precursor to a mature miRNA. In another embodiment, the cell is a hematopoetic cell. In a further embodiment, the cell is a B cell. In some embodiments, the cell is in vitro or in vivo.

BRIEF DESCRIPTION OF THE FIGURES

FIG. 1 is a flow diagram of a computational pipeline.

FIG. 2 is a flow diagram of a computational pipeline.

FIG. 3 is a flow diagram of a computational pipeline.

FIG. 4 is a graph depicting frequency distributions.

FIG. 5 is a diagram for new miRNAs identified in CB, Memory, and Naïve cells.

FIG. 6 is a diagram for known miRNAs identified in CB, Memory, and Naïve cells.

FIG. 7 is a diagram for new miRNAs identified in CB and RA cells.

FIG. 8 is a diagram for known miRNAs identified in CB and RA cells

FIG. 9 is a bar graph depicting computational predictions of precursors from cloned mature miRNA.

FIG. 10 is a schematic depicting the experimental procedure. The experimental approach includes two main steps: cloning and sequencing of short-RNA and computational analysis of sequences in order to identify potential miRNAs.

FIG. 11 is a diagram representing the Computational analysis of short-RNA libraries. Short-RNA sequences were grouped in three main categories: miRNAs, short-RNAs of unknown function and short-RNAs not matching the human genome. Short-RNA sequences were aligned to the human genome (hg18 assembly) and if a favorable match was identified the sequences were subject to computational identification of candidate miRNAs. Short-RNAs which aligned in the same genomic location were clustered and considered as supporting sequences for the same miRNA. Annotations were used to eliminate RNA aligning with mRNA, tRNA, rRNA and other non-coding RNA species. Overall, 401 unique candidate mature miRNA were identified and compared to the miRBase database to detect previously reported miRNA. Among the short-RNAs lacking miRNA features 30% were annotated and the remaining might represent a part of the transcriptome whose functions are still unknown. Short-RNAs which could be matched to the human genome only with 2 or more mismatches were considered as potential short-RNA or miRNA with unknown genomic locations.

FIG. 12 is a bar graph depicting a computational prediction of precursors and mature miRNA. The number of predicted precursor miRNAs (pre-miR) and mature miRNAs (mature-miR) are plotted independently for each library and overall. The sequences matching miRNAs deposited in the miRBase database (v.11.0) are defined as “known” and conversely the sequences not previously reported are named “new”.

FIG. 13A is a line graph depicting the analysis of miRNA identified in B cells short-RNA libraries. It shows the previously reported (known) miRNA and newly identified (new) miRNAs as occurring in naïve, centroblasts, memory and Ramos cells.

FIG. 13B are schematics depicting number of miRNAs specifically or commonly identified in naïve, centroblasts and memory B cell short-RNA libraries. A larger overlap is observed for known compared to new miRNA (42% versus 15%).

FIG. 13C is a bar graph depicting the conservation analysis for orthologous miRNAs was performed in 5 mammal species for all miRNA reported in the miRBase database (miRBase-all) and for known and new mature miRNA identified in B cell libraries. Frequency of conserved miRNAs in each species is displayed.

FIG. 14 are photographs depicting the detection of miRNA by Northern Blot. FIG. 14A shows the detection of newly identified mature-miRNA species by Northern Blot in Ramos cell line, centroblasts (CB), and naïve B cells isolated from human tonsils. The naming of miRNA is provisional. FIG. 14B shows images displaying both the mature (20-25 nt) and the precursor (60-80 nt) miRNA species. miRNA expression can be regulated at transcriptional level (top panel) or at the processing level (bottom panel) when intermediate forms (pre-miRNA) are generated but are not fully processed to mature miRNA.

FIG. 15 is an image of a microarray-based miRNA expression profiling that distinguishes developmental stages of normal as well as malignant B cells. FIG. 15A represents unsupervised clustering performed using miRNA frequencies values (>=0.16) calculated as the fraction of the total pool of cloned miRNAs represented by a given miRNA in a library. FIG. 15A(1) and FIG. 15A(2) are joined at the hatched line (A-A) to comprise FIG. 15A. FIG. 15B shows the Unsupervised clustering of microarray-based miRNA expression profiles distinguishes centroblasts, naïve and memory B cells purified from tonsil tissue of six patients/each. FIG. 15B(1) and FIG. 15B(2) are joined at the hatched line (A-A) to comprise FIG. 15B.

FIG. 16 is an image of a microarray-based miRNA expression profiling of GC-derived lymphomas. Unsupervised clustering of miRNA expression profiles of Burkitt lymphomas (BL), follicular lymphomas (FL) and diffuse large B cell lymphomas (DLBCL).

FIG. 17 are graphs demonstrating the complexity of libraries. The curves represent the estimation of the numbers of mature miRNA expressed in each library. Discarding outliers (extreme 5%), the lowest and highest miRNA counts observed per library sample are plotted. The current set of predicted mature miRNAs represents more than 80% of the estimated miRNA set expressed in the libraries. FIG. 17(1) and FIG. 17(2) are joined at the hatched line (A-A) to comprise FIG. 17.

FIG. 18 is flow chart depicting an overview of computational analysis for the short RNA libraries.

FIG. 19 is a graph of the predicted precursor and mature miRNAs. The number of predicted precursor miRNAs (pre-miR) and mature miRNAs (mature-miR) are plotted independently for each library and overall. Throughout the figures, the sequences matching miRNAs deposited in the miRBase database (v.11.0) are defined as “known,” and the sequences that to our knowledge have not been previously reported are named “new.”

FIG. 20 shows graphs and charts pertaining to the abundance and evolutionary conservation of the B-cell miRNome. FIG. 20A is a graph of the frequencies of previously reported (known) and to our knowledge newly identified (new) miRNAs as occurring in centroblasts, memory and Ramos cells. Single occurrences miRNAs are not included. FIG. 20B are Venn diagrams showing the number of miRNAs cloned multiple times and identified in naïve, centroblasts and memory B cells. A larger overlap is observed for known compared to new miRNA (48% versus 38%). FIG. 20C are bar graphs that show the conservation analysis for orthologous miRNAs that was performed in 5 mammal species for all miRNA reported in the miRBase database (miRBase-all) and for known and new mature miRNA expressed in the B-cell libraries. The percentages of miRNAs having either perfect conservation for the entire mature miRNA (top panel) or for its seeds (bottom panel) are displayed.

FIG. 21 are photographs showing the detection of previously unreported miRNAs by RT-PCR and RNA blot. FIG. 21A shows representative results of RT-PCR detection of miRNA in Ramos cell line and tonsil cells. miR-30c was used as loading control. FIG. 21B shows the detection of mature-miRNA species by RNA blot in Ramos cell line, centroblasts (CB) and naïve B cells isolated from human tonsils. RNU44 was used as loading control. FIG. 21C are RNA blot images displaying both the mature (20-25 nt) and the precursor (60-80 nt) miRNA species. miRNA expression can be regulated at transcriptional level (top panel) or at the processing level (bottom panel) when intermediate forms (pre-miRNA) are generated but are not fully processed to mature miRNA. The naming of miRNAs is provisional.

FIG. 22 is a schematic that shows miRNA expression profiling distinguishes developmental stages of normal as well as malignant B cells. FIG. 22A depicts unsupervised clustering performed using miRNA frequencies values (≧0.08) calculated as the fraction of the total pool of cloned miRNAs represented by a given miRNA in a library. FIG. 22A(1) and FIG. 22A(2) are joined at the hatched line (A-A), FIG. 22A(2) and FIG. 22A(3) are joined at the hatched line (B-B), and FIG. 22A(3) and FIG. 22A(4) are joined at the hatched line (C-C) to comprise FIG. 22A. FIG. 22B shows unsupervised clustering of microarray-based miRNA expression profiles distinguishes centroblasts, naïve and memory B cells purified from tonsil tissue of six patients/each. FIG. 22B(1) and FIG. 22B(2) are joined at the hatched line (A-A) to comprise FIG. 22B.

FIG. 23 are graphs that show the complexity of the libraries. The curves represent the estimation of the numbers of mature miRNA (including single occurrence candidate miRNA) expressed in each library. Discarding outliers (extreme 5%), the lowest and highest miRNA counts observed per library sample are plotted. The current set of predicted mature miRNAs represents more than 85% of the estimated miRNA set expressed in the libraries.

FIG. 24 is a schematic that shows the computational analysis of short-RNA libraries. Short-RNA sequences were grouped in three main categories: miRNAs, short-RNAs of unknown function and short-RNAs not matching the human genome.

FIG. 25 is a bar graph that shows new miRNAs are found in association with Ago2 protein complex. New miRNAs as well as known (miR-16) are enriched in Ago2 compared to control IgG immunoprecipitates (IP). The binding is specific since other RNA species (5s rRNA) are not enriched in the Ago2 immunoprecipitates. Bars represent the internally normalized average of two independent qPCR assays, each from two sets of three pooled immunoprecipitations. Error bars are the standard deviation of the measurements. The 4 new miRNAs found to be associated with the Ago2 complex are representative of miRNA cloned at higher level in non-GC B cells (CU-1254), in GC B cells (CU-1403; CU-1276) or aberrantly over-expressed in Ramos Burkitt lymphoma cells (CU-1137).

FIG. 26 is a bar graph that shows enrichment for predicted miRNA targets in genes down-regulated in GC compared to Naïve B cells. Target prediction was performed for 15 new miRNAs expressed at higher level in GC compared to naïve B cells (>3 fold) by miRanda v1.0 and RNA22. Targets predicted by both algorithms were tested for enrichment in the down-regulated genes of the GC transcriptome. Eleven out of 15 GC-over-expressed miRNAs showed an increase in their candidate target enrichment p-value in GC vs naïve down-regulated genes compared to control populations (memory vs naïve), two showed a decrease and two showed no differences. Enrichment p-values are reported in Table 13.

FIG. 27 is a plot showing the correlation measurement between cloning and miRNA expression array data. miRNA normalized clone counts and average expressions measured by miRNA expression arrays are represented in a scatter plot format. The plot includes data for miRNAs which have been cloned more than once and were represented on the Agilent Human miRNA Microarray. Overall, this analysis include 89 miRNA sequences distributed as following in the three libraries: 54 in naïve, 80 in centroblasts (CB) and 48 in memory. The Spearman correlation is 0.7 corresponding to a p-value<3.9e-28.

FIG. 28 is a bar graph showing the analysis of single nucleotide mismatches identified in cloned known miRNA. The plot represents the percentage of short-RNA corresponding to known miRNA and displaying mismatches to the human genome. Nucleotide in position 1 to 3 starting from both 5′- and 3′-end as well as all remaining middle nucleotides (nt middle) of each sRNA were analyzed for single substitutions.

DETAILED DESCRIPTION OF THE INVENTION

This invention provides for the discovery of a large number of new micro RNAs that have been identified to exist in normal Human B cells and/or in tumor-related Human B cells, using an integrated bioinformatics method and pipeline described herein.

Micro RNAs (miRNAs) are naturally-occurring 19 to 25 nucleotide transcripts found in over one hundred distinct organisms (such as nematodes, fruit flies, and humans). miRNAs can be processed from 60- to 70-nucleotide foldback RNA precursor structures, which are transcribed from the miRNA gene. The miRNA precursor processing reaction requires Dicer RNase III and Argonaute family members (Sasaki et al., 2003 Genomics 82, 323-330). The miRNA precursor or processed miRNA products are easily detected, and an alteration in the levels of these molecules within a cell can indicate a perturbation in the chromosomal region containing the miRNA gene.

At least 222 separate miRNA genes have been identified in the human genome. For example, 2 miRNA genes (miR15a and miR16a) have been localized to a homozygously deleted region on chromosome 13 that is correlated with chronic lymphocytic leukemia (Calin et al. (2002), Proc. Natl. Acad. Sci. USA 99:15524-29). However, the distribution of miRNA genes throughout the genome, and the relationship of the miRNA genes to diverse chromosomal features, has not been systematically studied. A further review of miRNAs is provided in U.S. Pat. No. 7,232,806, U.S. Patent Application Publication No. 2006/0105360, and in the references: Landgraf et al., 2007, Cell 129: 1401-1414; Mendell, J T, 2005 Cell Cycle 4(9):1179-84; Shivdasani R A, 2006 Blood 108(12):3646-53; Hwang and Mendell, 2006 Br J Cancer 94(6):776-80; Hammond S M, 2006; Curr Opin Genet Dev. 16(1):4-9; Osada and Takahashi, 2007 Carcinogenesis 28(1):2-12; and Zhang et al., 2007 Dev Biol. 302(1):1-12, all of which are hereby incorporated by reference in their entirety.

All nucleic acid sequences herein are given in the 5′ to 3′ direction, for example the mature miRNA sequences listed in Table 1 (SEQ ID NOS: 1-401).

The unprocessed miRNA gene transcript is called a miRNA precursor (pre-miRNA) and comprises an RNA transcript of about 70 nucleotides in length. The pre-miRNA can be processed by digestion with an RNAse (such as, Dicer, Argonaut, or RNAse III, e.g., E. coli RNAse III)) into an active 19-25 nucleotide RNA molecule. This active 19-25 nucleotide RNA molecule is also called the processed miRNA gene transcript.

The active 19-25 nucleotide RNA molecule can be obtained from the miRNA precursor through natural processing routes (for example, using intact cells or cell lysates) or by synthetic processing routes (for example, using isolated processing enzymes, such as isolated Dicer, Argonaut, or RNAase III). The active 19-25 nucleotide RNA molecule can also be produced directly by biological or chemical syntheses, without having been processed from the miRNA precursor.

The invention provides for an isolated nucleic acid that: (a) consists of from about 14 to about 31 nucleotides in length; (b) exhibits expression in a human tissue; and (c) has a nucleotide sequence not present in an exon. In one embodiment, the isolated nucleic acid consists essentially of a nucleotide sequence selected from the group consisting of SEQ ID NOS: 1-401 and 1094, and a nucleotide sequence which is about 97%, about 98%, or about 99% identical to a nucleic acid sequence comprising any one of SEQ ID NOS: 1-401 and 1094. In some embodiments, the human tissue comprises a lymphocyte (for example, a human B cell). In other embodiments, the B cell comprises a Naïve B cell, a centroblast, or a memory B cell.

For example, an isolated nucleic acid, such as a miRNA of the invention, can be synthesized, or altered, or removed from the natural state through human intervention. A synthetic miRNA, or a miRNA partially or completely separated from the coexisting materials of its natural state, is considered isolated. An isolated miRNA can exist in substantially purified form, or can exist in a cell into which the miRNA has been delivered.

An isolated nucleic acid, such as a miRNA of the invention, can be obtained using a number of standard techniques utilized in the art. For example, the miRNA gene products can be chemically synthesized or recombinantly produced using methods known in the art. For example, a miRNA can be chemically synthesized using appropriately protected ribonucleoside phosphoramidites and a conventional DNA/RNA synthesizer. Commercial suppliers of synthetic RNA molecules or synthesis reagents include, e.g., Proligo (Hamburg, Germany), Dharmacon Research (Lafayette, Colo., USA), Rosetta Genomics (North Brunswick, N.J.), Pierce Chemical (part of Perbio Science, Rockford, Ill., USA), Glen Research (Sterling, Va., USA), ChemGenes (Ashland, Mass., USA), Ambion (Foster City, Calif., USA), and Cruachem (Glasgow, UK).

miRNA can also be expressed from recombinant circular or linear DNA plasmids using any suitable promoter. Suitable promoters for expressing RNA from a plasmid include, e.g., the U6 or H1 RNA pol III promoter sequences, or the cytomegalovirus promoters. Selection of other suitable promoters is within the skill in the art. Recombinant plasmids can comprise inducible or regulatable promoters for expression of the miRNA in cancer cells (such as hematopoietic cells, i.e., B cells). For example, a miRNA or a precursor miRNA of the invention (such as a miRNA molecule comprising any one of SEQ ID NOS: 1-401 and 1094) can be placed under the control of the CMV intermediate-early promoter, whereby the nucleic acid sequences encoding the miRNA molecule are located 3′ of the promoter, so that the promoter can initiate transcription of the miRNA gene product coding sequences.

miRNAs expressed from recombinant plasmids can be isolated from cultured cell expression systems by standard techniques. miRNAs which are expressed from recombinant plasmids can also be delivered to, and expressed directly in, the cancer cells. A miRNA can be expressed as an RNA precursor molecule from a single plasmid, and the precursor molecules are subsequently processed into functional miRNAs by a suitable processing system, including the processing systems naturally existing within a cell. Other suitable processing systems include, e.g., the in vitro Drosophila cell lysate system as described in U.S. Application Publication No. 2002/0086356 to Tuschl et al. and the E. coli RNAse III system described in U.S. Application Publication No. 2004/0014113 to Yang et al., which are herein incorporated by reference in their entireties.

Plasmids suitable for expressing a miRNA of the invention, methods for inserting nucleic acid sequences into the plasmid to express the miRNA of interest, and methods of delivering the recombinant plasmid to cells of interest are well-established and practiced in the art. See, for example, Zeng et al. (2002), Molecular Cell 9:1327-1333; Tuschl (2002), Nat. Biotechnol, 20:446-448; Brummelkamp et al. (2002), Science 296:550-553; Miyagishi et al. (2002), Nat. Biotechnol. 20:497-500; Paddison et al. (2002), Genes Dev. 16:948-958; Lee et al. (2002), Nat. Biotechnol. 20:500-505; and Paul et al. (2002), Nat. Biotechnol. 20:505-508, the entire disclosures of which are herein incorporated by reference.

miRNA molecules of the invention can also be expressed from recombinant viral vectors. The RNA expressed from the recombinant viral vectors can either be isolated from cultured cell expression systems by standard techniques, or can be expressed directly in cancer cells (such as hematopoietic cells, i.e., B cells). For example, the recombinant viral vectors can comprise sequences that encode the miRNA molecule of interest and any suitable promoter for expressing the RNA sequences. Vectors can also comprise inducible or regulatable promoters for expression of the miRNA molecule in cells, such as cancer cell. As discussed previously, non-limiting examples of suitable promoters include the U6 or H1 RNA pol III promoter sequences, or the cytomegalovirus promoters. Selection of other suitable promoters is practiced by those of ordinary skill in the art.

Any viral vector that can harbor the nucleotide sequences for the miRNA molecules of the invention can be used. Non-limiting examples of such vectors include: vectors derived from adenovirus (AV); adeno-associated virus (AAV); retroviruses (e.g., lentiviruses (LV), Rhabdoviruses, murine leukemia virus); herpes virus, and the like. The tropism of the viral vectors can be modified by pseudotyping the vectors with envelope proteins or other surface antigens from other viruses, or by substituting different viral capsid proteins, as appropriate. For example, lentiviral vectors can be pseudotyped with surface proteins from vesicular stomatitis virus (VSV), rabies, Ebola, Mokola, and the like. For example, AAV vectors can be made to target different cells by engineering the vectors to express different capsid protein serotypes. An AAV vector expressing a serotype 2 capsid on a serotype 2 genome is called AAV 2/2. This serotype 2 capsid gene in the AAV 2/2 vector can be replaced by a serotype 5 capsid gene to produce an AAV 2/5 vector. Techniques for constructing AAV vectors which express different capsid protein serotypes are within the skill in the art; see, e.g., Rabinowitz J. E. et al. (2002), J Virol 76:791-801, the entire disclosure of which is herein incorporated by reference.

Recombinant viral vectors suitable for expressing miRNA molecules of the invention, methods for inserting nucleic acid sequences for expressing RNA in the vector, methods of delivering the viral vector to cells of interest, and recovery of the expressed RNA molecules are within the skill in the art. See, for example, Dornburg (1995), Gene Therap. 2:301-310; Eglitis (1988), Biotechniques 6:608-614; Miller (1990), Hum. Gene Therap. 1:5-14; and Anderson (1998), Nature 392:25-30, the entire disclosures of which are herein incorporated by reference. Useful viral vectors can be those derived from AV and AAV. A suitable AV vector for expressing a mRNA molecule of the invention, a method for constructing the recombinant AV vector, and a method for delivering the vector into target cells, are described in Xia et al. (2002), Nat. Biotech. 20:1006-1010, the entire disclosure of which is herein incorporated by reference. Suitable AAV vectors for expressing a miRNA molecule having a sequence shown in Table 1 (i.e., any one of SEQ ID NOS: 1-401), methods for constructing the recombinant AAV vector, and methods for delivering the vectors into target cells are described in Samulski et al. (1987), J. Virol. 61:3096-3101; Fisher et al. (1996), J. Virol., 70:520-532; Samulski et al. (1989), J. Virol. 63:3822-3826; U.S. Pat. No. 5,252,479; U.S. Pat. No. 5,139,941; International Patent Application No. WO 94/13788; and International Patent Application No. WO 93/24641, the entire disclosures of which are herein incorporated by reference.

Inhibition of RNA can effectively inhibit expression of a gene from which the RNA is transcribed. Inhibitors are selected from the group comprising: siRNA; interfering RNA or RNAi; dsRNA; RNA Polymerase III transcribed DNAs; ribozymes; and antisense nucleic acid, which can be RNA, DNA, or artificial nucleic acid. Also within the scope of the present invention are oligonucleotide sequences that include antisense oligonucleotides, antagomirs (also referred to as miRNA inhibitory nucleic acids), aptamers, and ribozymes that function to inhibit miRNA expression via purportedly binding to or degrading a miRNA molecule comprising any one of SEQ ID NOS: 1-401 and 1094.

The invention provides for a nucleic acid molecule that is substantially complementary to an isolated nucleic acid of the invention described above. “Substantially complementary” means that two sequences are substantially complementary that a duplex can be formed between them. The duplex can have one or more mismatches but the region of duplex formation is sufficient to down-regulate expression of the target nucleic acid. The region of substantial complementarity can be perfectly paired. In one embodiment, there can be nucleotide mismatches in the region of substantial complementarity. In one embodiment, the region of substantial complementarity will have no more than 1, 2, 3, 4, or 5 mismatches.

For example, an antagomir, an antisense RNA, a small interfering RNA (siRNA), a short hairpin RNA (snRNA), and the like) can be complementary to the guide strand of a miRNA having a nucleotide sequence shown in Table 1, positioned in the RNA silencing complex. This nucleic acid molecule can be single stranded or can be double stranded, and can inhibit the expression or activity of a miRNA molecule of the invention. In one embodiment, the nucleic acid molecule that inhibits a miRNA molecule of the invention (such as those described above) can complement at least 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, or 31 contiguous nucleotides of a miRNA having a nucleic acid sequence selected from the group consisting of SEQ ID NOS: 1-401 and 1094, and a nucleotide sequence which is about 97%, about 98%, or about 99% identical to a nucleic acid sequence comprising any one of SEQ ID NOS: 1-401 and 1094.

The invention also provides a method for modulating a target nucleic acid in a cell (for example, a miRNA molecule having a nucleotide sequence comprising any one of SEQ ID NOS: 1-401 and 1094) via contacting the cell with a nucleic acid of the invention (for example, those described above). For example, the nucleic acid can be substantially complementary to at least 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, or 31 contiguous nucleotides of a nucleic acid sequence selected from the group consisting of SEQ ID NOS: 1-401 and 1094, and a nucleotide sequence which is about 97%, about 98%, or about 99% identical to a nucleic acid sequence comprising any one of SEQ ID NOS: 1-401 and 1094.

Expression of a miRNA molecule of the invention can be inhibited by an antisense oligonucleotide. Antisense oligonucleotides can comprise antisense DNA, RNA, and DNA/RNA molecule and act via altering the activity of the target RNA by binding to a target nucleic acid (such as a miRNA of interest) by means of RNA-RNA, RNA-DNA or RNA-PNA (protein nucleic acid) interactions (for a review, see Stein and Cheng, 1993 Science 261, 1004 and Woolf et al., U.S. Pat. No. 5,849,902). Antisense oligonucleotides suitable for use in the present methods are single-stranded nucleic acids (e.g., RNA, DNA, RNA-DNA chimeras, PNA) that generally comprise a nucleic acid sequence complementary to a contiguous nucleic acid sequence in a miRNA molecule. For example, the antisense oligonucleotide comprises a nucleic acid sequence that is 50-100% complementary, 75-100% complementary, or 95-100% complementary to a contiguous nucleic acid sequence in a miRNA molecule of the invention having a nucleic acid sequence of SEQ ID NO: 1-401, shown in Table 1. However, in some instances, an antisense molecule can form a loop and binds to a substrate nucleic acid which forms a loop. Thus, an antisense molecule can be complementary to two (or more) non-contiguous substrate sequences, or two (or more) non-contiguous sequence portions of an antisense molecule can be complementary to a target sequence, or both. For a review of current antisense strategies, see Schmajuk et al., 1999, J. Biol. Chem., 274, 21783-21789; Delihas et al., 1997, Nature, 15, 751-753; Stein et al., 1997, Antisense N A. Drug Dev., 7, 151; Crooke, 2000, Methods Enzymol., 313, 3-45; Crooke, 1998, Biotech. Genet. Eng. Rev., 15, 121-157; Crooke, 1997, Ad. Pharmacol., 40, 1-49.

Antisense DNA can also be used to target nucleic acid by means of DNA-RNA interactions, thereby activating RNase H, which digests the target nucleic acid in the duplex. The antisense oligonucleotides can comprise one or more RNAse H activating region, which is capable of activating RNAse H to cleave a target nucleic acid. Antisense DNA can be synthesized chemically or expressed via the use of a single stranded DNA expression vector or equivalent thereof. An RNase H activating region refers to a region (generally greater than or equal to 4-25 nucleotides in length, for example, from 5-11 nucleotides in length) of a nucleic acid compound capable of binding to a target nucleic acid to form a non-covalent complex that is recognized by cellular RNase H enzyme (see for example Arrow et al., U.S. Pat. No. 5,849,902; Arrow et al., U.S. Pat. No. 5,989,912). The RNase H enzyme binds to a nucleic acid compound-target nucleic acid complex and cleaves the target nucleic acid sequence.

Antisense nucleic acids can be produced chemically or biologically, or can be expressed from a recombinant plasmid or viral vector, as described above for the isolated miRNA molecules. For example, antisense oligonucleotides of at least about 15 bases and complementary to unique regions of the miRNA molecules of the invention can be synthesized, e.g., by conventional phosphodiester techniques (Dallas et al., (2006) Med. Sci. Monit. 12(4):RA67-74; Kalota et al., (2006) Handb. Exp. Pharmacol. 173:173-96; Lutzelburger et al., (2006) Handb. Exp. Pharmacol. 173:243-59). Exemplary methods for producing and testing are within the skill in the art; see, e.g., Stein and Cheng (1993), Science 261:1004 and U.S. Pat. No. 5,849,902 to Woolf et al., the entire disclosures of which are herein incorporated by reference.

Antisense polynucleotides include, but are not limited to: morpholinos, 2′-β-methyl polynucleotides, DNA, RNA and the like. RNA polymerase III transcribed DNAs contain promoters, such as the U6 promoter. These DNAs can be transcribed to produce small hairpin RNAs in the cell that can function as siRNA or linear RNAs that can function as antisense RNA. The inhibitor can be polymerized in vitro, recombinant RNA, contain chimeric sequences, or derivatives of these groups. The inhibitor can contain ribonucleotides, deoxyribonucleotides, synthetic nucleotides, or any suitable combination such that the target RNA and/or gene is inhibited. In addition, these forms of nucleic acid can be single, double, triple, or quadruple stranded. (see for example Bass (2001) Nature, 411, 428 429; Elbashir et al., (2001) Nature, 411, 494 498; and PCT Publication Nos. WO 00/44895, WO 01/36646, WO 99/32619, WO 00/01846, WO 01/29058, WO 99/07409, WO 00/44914).

siRNA comprises a double stranded structure that can contain 15 to 50 base pairs, or 21 to 25 base pairs, and having a nucleotide sequence identical or nearly identical to an expressed target gene or RNA within the cell. The siRNA comprise a sense RNA strand and a complementary antisense RNA strand annealed together by standard Watson-Crick base-pairing interactions. The sense strand comprises a nucleic acid sequence which is substantially identical to a nucleic acid sequence contained within the target miRNA molecule. “Substantially identical” to a target sequence contained within the target mRNA refers to a nucleic acid sequence that is identical to the target sequence, or that differs from the target sequence by one or two nucleotides. The sense and antisense strands of the siRNA can comprise two complementary, single-stranded RNA molecules, or can comprise a single molecule in which two complementary portions are base-paired and are covalently linked by a single-stranded “hairpin” area.

The siRNA can also be altered RNA that differs from naturally-occurring RNA by the addition, deletion, substitution and/or alteration of one or more nucleotides. Such alterations can include addition of non-nucleotide material, such as to the end(s) of the siRNA or to one or more internal nucleotides of the siRNA, or modifications that make the siRNA resistant to nuclease digestion, or the substitution of one or more nucleotides in the siRNA with deoxyribonucleotides. One or both strands of the siRNA can also comprise a 3′ overhang. As used herein, a 3′ overhang refers to at least one unpaired nucleotide extending from the 3′-end of a duplexed RNA strand. For example, the siRNA can comprise at least one 3′ overhang of from 1 to about 6 nucleotides (which includes ribonucleotides or deoxyribonucleotides) in length, or from 1 to about 5 nucleotides in length, or from 1 to about 4 nucleotides in length, or from about 2 to about 4 nucleotides in length. For example, each strand of the siRNA can comprise 3′ overhangs of dithymidylic acid (“TT”) or diuridylic acid (“uu”).

siRNA can be produced chemically or biologically, or can be expressed from a recombinant plasmid or viral vector, as described above for the miRNA molecules of the invention having a sequence shown in Table 1. Exemplary methods for producing and testing dsRNA or siRNA molecules are described in U.S. Patent Application Publication No. 2002/0173478 to Gewirtz, U.S. Patent Application Publication No. 2007/0072204 to Hannon et al., and in U.S. Patent Application Publication No. 2004/0018176 to Reich et al., the entire disclosures of which are herein incorporated by reference.

Expression of a miRNA molecule of the invention can also be inhibited by a short hairpin RNA (shRNA). The hairpin RNAs can be synthesized exogenously or can be formed by transcribing from RNA polymerase III promoters in vivo. Examples of making and using such hairpin RNAs for gene silencing in mammalian cells are described in, for example, Paddison et al., 2002, Genes Dev, 16:948-58; McCaffrey et al., 2002, Nature, 418:38-9; McManus et al., 2002, RNA, 8:842-50; Yu et al., 2002, Proc Natl Acad Sci USA, 99:6047-52). Such hairpin RNAs are engineered in cells or in an animal to ensure continuous and stable suppression of a desired gene. It is known in the art that siRNAs can be produced by processing a hairpin RNA in the cell.

Expression of a miRNA molecule of the invention can also be inhibited by a ribozyme. Ribozymes are enzymatic RNA molecules capable of catalyzing the specific cleavage of RNA. The mechanism of ribozyme action involves sequence specific hybridization of the ribozyme molecule to complementary target RNA sequences (for example those shown in Table 1), followed by endonucleolytic cleavage. Engineered hammerhead motif ribozyme molecules that specifically and efficiently catalyze endonucleolytic cleavage of a miRNA sequence shown in Table 1, are also within the scope of the present invention. Scanning the target molecule for ribozyme cleavage sites that include the following sequences, GUA, GUU, and GUC initially identifies specific ribozyme cleavage sites within any potential RNA target. Once identified, short RNA sequences of between about 15 and 20 ribonucleotides corresponding to the region of the target gene containing the cleavage site can be evaluated for predicted structural features such as secondary structure that can render the oligonucleotide sequence unsuitable.

The suitability of candidate targets can also be evaluated by testing their accessibility to hybridization with complementary oligonucleotides using, e.g., ribonuclease protection assays (see Romkes et al., 2005, Methods Mol. Biol.; 291:387-98; Dvorak et al., 2003, Biomed Pap Med Fac Univ Palacky Olomouc Czech Repub147(2):131-5). The construction and production of hammerhead ribozymes is well known in the art and is described more fully in Haseloff and Gerlach, 1988, Nature, 334:585-591. Ribozymes can also include RNA endoribonucleases such as the one which occurs naturally in Tetrahymena thermophila (known as the IVS or L-19 IVS RNA) and which has been described (see, e.g., Zaug, et al., 1984, Science, 224:574-578; Zaug and Cech, 1986, Science, 231:470-475; Zaug, et al., 1986, Nature, 324:429-433; published International patent application No. WO88/04300 by University Patents Inc.; Been and Cech, 1986, Cell, 47:207-216).

Both the antisense oligonucleotides and ribozymes of the present invention can be prepared by known methods. These include techniques for chemical synthesis such as, e.g., by solid phase phosphoamite chemical synthesis. Alternatively, antisense RNA molecules can be generated by in vitro or in vivo transcription of DNA sequences encoding the RNA molecule. Such DNA sequences can be incorporated into a wide variety of vectors that incorporate suitable RNA polymerase promoters such as the T7 or SP6 polymerase promoters.

Alternatively, expression of a miRNA molecule of the invention can be inhibited by an antagomir. An antagomir is a single-stranded, double stranded, partially double stranded or hairpin structured chemically modified oligonucleotide agent that comprises at least 12 or more contiguous nucleotides substantially complementary to an endogenous miRNA or agents that include 12 or more contiguous nucleotides substantially complementary to a target sequence of an miRNA or pre-miRNA nucleotide sequence. The antagomir can be RNA, DNA, or a combination of RNA and DNA, an is antisense with respect to its target nucleotide sequence. An antagomir can target RNA, e.g., an endogenous pre-miRNA or miRNA of the subject. For example, the antagomir can target a miRNA having a nucleic acid sequence shown in Table 1. Exemplary methods for producing and testing antagomirs are discussed in U.S. Patent Application Publication No. 2007/0123482 and U.S. Patent Application Publication No. 005/0182005, in addition to Mattes et al., 2007 Am J Resp Cell Mol Biol 36: 8-12; Krützfeldt et al., 2007 Nuc Acid Res 35(9): 2885-2892, which are all incorporated by reference in their entireties.

Various modifications to the nucleic acid molecules of the present invention can be introduced as a means of increasing intracellular stability and half-life. Some modifications include but are not limited to the addition of flanking sequences of ribonucleotides or deoxyribonucleotides to the 5′ and/or 3′ ends of the molecule, or the use of phosphorothioate or 2′-O-methyl rather than phosphodiesterase linkages within the oligonucleotide backbone.

Expression of a miRNA molecule of the invention can be inhibited by an aptamer. Aptamer nucleic acid sequences are readily made that bind to a wide variety of target molecules. The aptamer nucleic acid sequences of the invention can be comprised entirely of RNA or partially of RNA, or entirely or partially of DNA and/or other nucleotide analogs. A nucleic acid aptamer is a nucleic acid or a nucleic acid-like molecule that is capable of binding to a specific molecule of interest with high affinity and specificity. A nucleic acid aptamer also can be a nucleic acid molecule that mimics the three dimensional structure of active portions of miRNAs. A nucleic acid-aptamer can be between about 9 and about 300 nucleotides or the like in length. More commonly, an aptamer is between about 30 and about 100 nucleotides or the like in length.

Aptamers are developed to bind specific ligands by employing known in vivo or in vitro selection techniques known as SELEX (Systematic Evolution of Ligands by Exponential Enrichment). Nucleic acid-aptamers can be prepared by any known method, including synthetic, recombinant, and purification methods. Such methods are described in, for example, Ellington and Szostak (1990) Nature 346:818, Tuerk and Gold (1990) Science 249:505, James W., (2001) Current Opinion in Pharmacology, 1:540-546, Colas et al., (1996) Nature 380:548-550, U.S. Pat. No. 5,582,981; PCT Publication No. WO 00/20040; U.S. Pat. No. 5,270,163; Lorsch and Szostak (1994) Biochem. 33:973; Mannironi et al., (1997) Biochem. 36:9726; Blind (1999) Proc. Nat'l. Acad. Sci. USA 96:3606-3610; Huizenga and Szostak (1995) Biochem. 34:656-665; PCT Publication Nos. WO 99/54506, WO 99/27133, and WO 97/42317; and U.S. Pat. No. 5,756,291, all of which are incorporated by reference in their entireties.

Expression of a given miRNA molecule can be inhibited or decreased by inducing RNA interference of the miRNA molecule with an isolated double-stranded or single-stranded RNA molecule. For example, the miRNA inhibitor molecule can be those molecules discussed above, such as an antagomir, an antisense RNA, a small interfering RNA (siRNA), a short hairpin RNA (snRNA), and the like) which has at least about 75%, 80%, 90%, 95%, 98%, 99% or 100%, sequence homology to a portion of a miRNA molecule having a sequence shown in Table 1. For further discussion of modulation of miRNA expression, see: Lu et al., (2005) Adv Genet. 54:117-42; Leung and Whittaker (2005) Pharmacol Ther. 107(2):222-39; Takeshita and Ochiva (2006) Cancer Sci. 97(8):689-96; and Alexander et al., (2007) Arch Immunol Ther Exp (Warsz). 2007 May-June; 55(3):139-49.

A subject in need thereof, according to the invention, can refer to any animal classified as a mammal, including humans, domestic and farm animals, and zoo, sports, or pet animals. In some embodiments, the subject can be a mouse, a rat, a bird, a dog, a cat, a cow, a horse, a sheep, or a pig. In exemplary embodiments, a mammal is a human.

Methods for determining RNA expression levels in cells from a biological sample are within the level of skill in the art. For example, tissue sample can be removed from a subject suspected of having cancer associated with a cancer-associated chromosomal feature by conventional biopsy techniques. In another example, a blood sample can be removed from the subject, and white blood cells isolated for DNA extraction by standard techniques. The blood or tissue sample should be obtained from the subject prior to initiation of radiotherapy, chemotherapy or other therapeutic treatment. A corresponding control tissue or blood sample can be obtained from unaffected tissues of the subject, from a normal human individual or population of normal individuals, or from cultured cells corresponding to the majority of cells in the subject's sample. The control tissue or blood sample is then processed along with the sample from the subject, so that the levels of miRNA molecules in cells from the subject's sample can be compared to the corresponding miRNA molecule levels from cells of the control sample. For example, the relative miRNA expression in the control and normal samples can be conveniently determined with respect to one or more RNA expression standards. The standards can comprise, for example, a zero miRNA expression level, the miRNA expression level in a standard cell line, or the average level of miRNA expression previously obtained for a population of normal human controls.

Suitable techniques for determining the level of RNA transcripts of a gene of interest in cells are within the skill in the art. According to one such method, total cellular RNA can be purified from cells by homogenization in the presence of nucleic acid extraction buffer, followed by centrifugation. Nucleic acids are precipitated, and DNA is removed by treatment with DNase and precipitation. The RNA molecules are then separated by gel electrophoresis on agarose gels according to standard techniques, and transferred to nitrocellulose filters by, e.g., the so-called “Northern” blotting technique. The RNA is then immobilized on the filters by heating. Detection and quantification of specific RNA is accomplished using appropriately labeled DNA or RNA probes complementary to the RNA in question. See, for example, Molecular Cloning: A Laboratory Manual, J. Sambrook et al., eds., 2nd edition, Cold Spring Harbor Laboratory Press, 1989, Chapter 7, the entire disclosure of which is incorporated by reference.

Suitable probes for Northern blot hybridization of a given miRNA molecule can be produced from the nucleic acid sequences provided in Table 1. Methods for preparation of labeled DNA and RNA probes, and the conditions for hybridization thereof to target nucleotide sequences, are described in Molecular Cloning: A Laboratory Manual, J. Sambrook et al., eds., 2nd edition, Cold Spring Harbor Laboratory Press, 1989, Chapters 10 and 11, the disclosures of which are herein incorporated by reference. For example, the nucleic acid probe can be labeled with, e.g., a radionuclide such as 3H, ³²P, ³³P, ¹⁴C, or ³⁵S; a heavy metal; or a ligand capable of functioning as a specific binding pair member for a labeled ligand (e.g., biotin, avidin or an antibody), a fluorescent molecule, a chemiluminescent molecule, an enzyme or the like.

Probes can be labeled to high specific activity by either the nick translation method of Rigby et al. (1977), J. Mol. Biol. 113:237-251 or by the random priming method of Fienberg et al. (1983), Anal. Biochem. 132:6-13, the entire disclosures of which are herein incorporated by reference. Fienberg et al. provides a useful method for synthesizing ³²P-labeled probes of high specific activity from single-stranded DNA or from RNA templates. For example, by replacing preexisting nucleotides with highly radioactive nucleotides according to the nick translation method, ³²P-labeled nucleic acid probes can be prepared with a specific activity well in excess of 10⁸ cpm/microgram. Autoradiographic detection of hybridization can then be performed by exposing hybridized filters to photographic film. Densitometric scanning of the photographic films exposed by the hybridized filters provides an accurate measurement of miRNA molecule levels. Using another approach, miRNA molecule levels can be quantified by computerized imaging systems, such the Molecular Dynamics 400-B 2D Phosphorimager available from Amersham Biosciences, Piscataway, N.J.

Where radionuclide labeling of DNA or RNA probes is not practical, the random-primer method can be used to incorporate an analogue, for example, the dTTP analogue 5-(N—(N-biotinyl-epsilon-aminocaproyl)-3-aminoallyl)deoxyuridine triphosphate, into the probe molecule. The biotinylated probe oligonucleotide can be detected by reaction with biotin-binding proteins, such as avidin, streptavidin, and antibodies (e.g., anti-biotin antibodies) coupled to fluorescent dyes or enzymes that produce color reactions.

In addition to Northern and other RNA blotting hybridization techniques, determining the levels of RNA transcripts can be accomplished using the technique of in situ hybridization. This technique requires fewer cells than the Northern blotting technique, and involves depositing whole cells onto a microscope cover slip and probing the nucleic acid content of the cell with a solution containing radioactive or otherwise labeled nucleic acid (e.g., cDNA or RNA) probes. This technique is well-suited for analyzing tissue biopsy samples from subjects. The practice of the in situ hybridization technique is described in more detail in U.S. Pat. No. 5,427,916, the entire disclosure of which is incorporated herein by reference. Suitable probes for in situ hybridization of a given miRNA molecule can be produced from the nucleic acid sequences provided in Table 1, as described above.

The relative number of miRNA transcripts in cells can also be determined by reverse transcription of miRNA transcripts, followed by amplification of the reverse-transcribed transcripts by polymerase chain reaction (RT-PCR). The levels of miRNA gene transcripts can be quantified in comparison with an internal standard, for example, the level of mRNA from a housekeeping gene present in the same sample, such as myosin or glyceraldehyde-3-phosphate dehydrogenase (G3PDH). The methods for quantitative RT-PCR and variations thereof are within the skill in the art.

It is desirable to simultaneously determine the expression level of a plurality of different of miRNA molecules in a sample, for example determine the expression level of the transcripts of known miRNAs correlated with cancer or other cell division disorders (for example, a hematopoietic cell division disorder, such as a B cell lymphoma). Since examining cancer-specific expression levels for hundreds of miRNA molecules is time consuming, requires a large amount of total RNA (at least 20 μg for each Northern blot) and utilizes autoradiographic techniques that require radioactive isotopes, an oligolibrary in microchip format can be constructed containing a set of probe oligonucleotides specific for a set of miRNA molecules (for example, miRNA molecules having any one nucleic acid sequence of SEQ ID NOS: 1-401, shown in Table 1, or any one miRNA molecule of Table 7, Table 9, or Table 10).

A nucleic acid microchip array is a plurality of probe elements, each probe element comprising one or more nucleic acid molecules immobilized on one or more solid surfaces to which sample nucleic acids can be hybridized. Microarrays are known in the art and comprise a surface to which probes that correspond in sequence to gene products (e.g., cDNAs, mRNAs, cRNAs, polypeptides, and fragments thereof), can be specifically hybridized or bound at a known position. The microarray can be an array (i.e., a matrix) in which each position represents a discrete binding site for an RNA, and in which binding sites are present for products of most of the genes in the organism's genome, or a specific tissue or cellular subset of the organism. Here, the binding site can be a nucleic acid or nucleic acid analogue to which a cognate cDNA or RNA, such as miRNA molecule of the invention, can specifically hybridize. The nucleic acid or analogue of the binding site can be, e.g., a synthetic miRNA oligomer.

The nucleic acid or analogue is attached to a solid support, which can be made from glass, plastic (e.g., polypropylene, nylon), polyacrylamide, nitrocellulose, or other materials. A useful method for attaching the nucleic acids to a surface is by printing on glass plates, as is described generally by Schena et al., 1995. See also DeRisi et al., 1996; Shalon et al., 1996; Schena et al., 1996. Each of these articles is incorporated by reference in its entirety.

The microchip is prepared from gene-specific oligonucleotide probes generated from known miRNAs. A nucleic acid array can contain two different oligonucleotide probes for each miRNA, one containing the active sequence and the other being specific for the precursor of the miRNA (for example, see Table 1). The array can also contain controls such as one or more mouse sequences differing from human orthologs by only a few bases, which can serve as controls for hybridization stringency conditions. tRNAs from both species can also be printed on the microchip, providing an internal, relatively stable positive control for specific hybridization. One or more appropriate controls for non-specific hybridization can also be included on the microchip. For this purpose, sequences are selected based upon the absence of any homology with any known miRNAs. For example, the array can also contain miRNA sequences found to be specific for human B cells. Non-limiting examples of such miRNA's include: mir-15, mir-17, mir-14, mir-124a-3, mir-99b, mir-167a, mir-167b, mir-129-1, mir-30c-2, mir-143, mir-27b, mir-125b-1, mir-128a, mir-140, mir-142, mir-191, mir-125b-2, mir-127, mir-129-2, mir-146a, mir-154, mir-185, mir-186, mir-322, mir-124a-1, mir-124a-2, mir-30c-1, mir-302a, and mir-99b.

The microchip can be fabricated by techniques known in the art. For example, probe oligonucleotides of an appropriate length, e.g., 40 nucleotides, are 5′-amine modified at position C6 and printed using commercially available microarray systems, e.g., the GeneMachine OmniGrid™ 100 Microarrayer and Amersham CodeLink™ activated slides. Labeled cDNA oligomer corresponding to the target RNAs is prepared by reverse transcribing the target RNA with labeled primer. Following first strand synthesis, the RNA/DNA hybrids are denatured to degrade the RNA templates. The labeled target cDNAs thus prepared are then hybridized to the microarray chip under hybridizing conditions, e.g. 6.times.SSPE/30% formamide at 25° C. for 18 hours, followed by washing in 0.75.times.TNT at 37° C. for 40 minutes. At positions on the array where the immobilized probe DNA recognizes a complementary target cDNA in the sample, hybridization occurs. The labeled target cDNA marks the exact position on the array where binding occurs, allowing automatic detection and quantification. The output consists of a list of hybridization events, indicating the relative abundance of specific cDNA sequences, and therefore the relative abundance of the corresponding complementary miRs, in the patient sample. According to one embodiment, the labeled cDNA oligomer is a biotin-labeled cDNA, prepared from a biotin-labeled primer. The microarray is then processed by direct detection of the biotin-containing transcripts using, e.g., Streptavidin-Alexa647 conjugate, and scanned utilizing conventional scanning methods. Images intensities of each spot on the array are proportional to the abundance of the corresponding miR in the patient sample.

Other methods for making microarrays (see U.S. Patent Application Publication No. 2006/0051771, which is incorporate by reference in its entirety), e.g., by masking (Fodor et al., 1991; Maskos and Southern, 1992), can also be used. In principal, any type of array, for example, dot blots on a nylon hybridization membrane (see Sambrook et al., 1989, which is incorporated in its entirety for all purposes), can be used, although, as will be recognized by those of skill in the art, very small arrays are useful because hybridization volumes will be smaller.

Labeled cDNA can be prepared from mRNA by oligo dT-primed or random-primed reverse transcription, both of which are well known in the art. Reverse transcription can be carried out in the presence of a dNTP conjugated to a detectable label, for example, a fluorescently labeled dNTP. Alternatively, isolated mRNA can be converted to labeled antisense RNA synthesized by in vitro transcription of double-stranded cDNA in the presence of labeled dNTPs (Lockhart et al., 1996, which is incorporated by reference in its entirety for all purposes). In alternative embodiments, the cDNA or aRNA probe can be synthesized in the absence of detectable label and can be labeled subsequently, e.g., by incorporating biotinylated dNTPs or rNTP, or some similar means (e.g., photo-cross-linking a psoralen derivative of biotin to RNAs), followed by addition of labeled streptavidin (e.g., phycoerythrin-conjugated streptavidin) or the equivalent. Alternatively, cDNA or aRNA can be labeled indirectly by incorporation of 5-(3-aminoallyl) dNTPs or rNTPs to provide a amine reactive group for subsequent addition of label with any moiety bearing an N-Hydroxysuccinimide (NHS) ester.

Fluorescently labeled probes can be used, including suitable fluorophores such as fluorescein, lissamine, phycoerythrin, rhodamine (Perkin Elmer Cetus), Cy2, Cy3, Cy3.5, Cy5, Cy5.5, Cy7, Fluor X (Amersham) and others (see, e.g., Kricka, 1992, Nonisotopic DNA Probe Techniques, Academic Press San Diego, Calif.). It will be appreciated that pairs of fluorophores are chosen that have distinct emission spectra so that they can be easily distinguished. In another embodiment, a label other than a fluorescent label is used. For example, a radioactive label, or a pair of radioactive labels with distinct emission spectra, can be used (see Zhao et al., 1995; Pietu et al., 1996).

The analysis of microarray data can be accomplished using methods of statistical analysis known to those skilled in the art. For example, clustering analysis is commonly used for interpretation of microarray data. It provides both a visual representation of complex data and a method for measuring similarity between experiments. Some widely used methods for clustering microarray data include: hierarchical, K-means, and self-organizing map.

Southern blot hybridization techniques are also within the skill in the art. For example, genomic DNA isolated from a subject's sample can be digested with restriction endonucleases. This digestion generates restriction fragments of the genomic DNA that can be separated by electrophoresis, for example, on an agarose gel. The restriction fragments are then blotted onto a hybridization membrane (e.g., nitrocellulose or nylon), and hybridized with labeled probes specific for a given miRNA molecule(s). A deletion or mutation of these genes is indicated by an alteration of the restriction fragment patterns on the hybridization membrane, as compared to DNA from a control sample that has been treated identically to the DNA from the subject's sample. Probe labeling and hybridization conditions suitable for detecting alterations in gene structure or sequence can be readily determined by one of ordinary skill in the art. The miRNA nucleic acid probes for Southern blot hybridization can be designed based upon the nucleic acid sequences having SEQ ID NOS: 1-401, provided in Table 1, or any one miRNA molecule of Table 7, Table 9, or Table 10. Nucleic acid probe hybridization can then be detected by exposing hybridized filters to photographic film, or by employing computerized imaging systems, such the Molecular Dynamics 400-B 2D Phosphorimager available from Amersham Biosciences, Piscataway, N.J.

Human miRNAs are associated with different classes of chromosomal features that are subsequently associated with cancer (Xu and Li (2007) Chin Med J (Engl). 120(11):996-9; Bandres et al., (2007) DNA Cell Biol. 26(5):273-82). These cancers are purportedly partly caused by perturbing the chromosome or genomic DNA caused by the cancer-associated chromosomal feature, which can affect expression of oncogenes or tumor-suppressor genes located near the site of perturbation. A given cancer can be treated by restoring the level of miRNA expression associated with that cancer to normal. For example, if the level of miRNA expression is down-regulated in cancer cells of a subject, then the cancer can be treated by increasing the miRNA expression level. Alternatively, if the miRNA expression level is up-regulated in cancer cells of a subject, then the cancer can be treated by decreasing the miRNA expression level.

For example, the level of a miRNA in a cancerous or neoplastic cell of a subject (for example a hematopoietic malignancy or a hematopoietic neoplasm) is first determined relative to control cells. Techniques suitable for determining the relative level of a miRNA molecule in cells have been described above. If miRNA expression is down-regulated in the cancer or neoplastic cell relative to control cells, then the cancer or neoplastic cells are treated with an effective amount of a composition comprising a isolated miRNA molecule which is down-regulated (for example, a miRNA of the invention comprising any one of SEQ ID NOS: 1-401, as shown in Table 1, or any one miRNA molecule of Table 7, Table 9, or Table 10). If miRNA expression is up-regulated in cancer or neoplastic cells relative to control cells, then the cancer or neoplastic cells are treated with an effective amount of a composition that inhibits miRNA expression (for example, a miRNA of the invention comprising any one of SEQ ID NOS: 1-401, as shown in Table 1, or any one miRNA molecule of Table 7, Table 9, or Table 10).

One skilled in the art can also readily determine an appropriate dosage for the administration of an isolated miRNA molecule to a given subject. For example, a miRNA molecule can be administered to the subject once (e.g., as a single injection or deposition). Alternatively, a miRNA molecule of the invention can be administered once or twice daily to a subject for a period of from about two to about twenty-eight days, for example, from about seven to about ten days. Furthermore, the miRNA molecule of the invention can be co-administrated with another therapeutic, such as a chemotherapy drug. Where a dosage regimen comprises multiple administrations, the effective amount of the miRNA molecule administered to the subject can comprise the total amount of gene product administered over the entire dosage regimen.

The miRNA molecules of the invention comprising any one of SEQ ID NOS: 1-401, as shown in Table 1, or any one miRNA molecule of Table 7, Table 9, or Table 10, can be administered to a subject by any means suitable for delivering the miRNA molecules to cells of the subject, such as hematopoietic cells (either cancerous or neoplastic). For example, miRNA molecules can be administered by methods suitable to transfect cells (such as of the subject with the miRNA molecules of the invention. Transfection methods for eukaryotic cells (such as hematopoietic malignant cells or a hematopoietic neoplastic cells) are well known in the art, and include direct injection of the nucleic acid into the nucleus or pronucleus of a cell; electroporation; liposome transfer or transfer mediated by lipophilic materials; receptor mediated nucleic acid delivery, bioballistic or particle acceleration; calcium phosphate precipitation, and transfection mediated by viral vectors.

The compositions of this invention can be formulated and administered to inhibit a variety of disease states by any means that produces contact of the active ingredient with the agent's site of action in the body of a mammal. They can be administered by any conventional means available for use in conjunction with pharmaceuticals, either as individual therapeutic active ingredients or in a combination of therapeutic active ingredients. They can be administered alone, but are generally administered with a pharmaceutical carrier selected on the basis of the chosen route of administration and standard pharmaceutical practice.

Pharmaceutical compositions for use in accordance with the invention can be formulated in conventional manner using one or more physiologically acceptable carriers or excipients. The therapeutic compositions of the invention can be formulated for a variety of routes of administration, including systemic and topical or localized administration. Techniques and formulations generally can be found in Remmington's Pharmaceutical Sciences, Meade Publishing Co., Easton, Pa. (1985), the entire disclosure of which is herein incorporated by reference. For systemic administration, injection is useful, including intramuscular, intravenous, intraperitoneal, and subcutaneous. For injection, the therapeutic compositions of the invention can be formulated in liquid solutions, for example, in physiologically compatible buffers such as Hank's solution or Ringer's solution. In addition, the therapeutic compositions can be formulated in solid form and redissolved or suspended immediately prior to use. Lyophilized forms are also included. Pharmaceutical compositions of the present invention are characterized as being at least sterile and pyrogen-free. These pharmaceutical formulations include formulations for human and veterinary use.

The present pharmaceutical formulations comprise the miRNA molecules of the invention comprising any one of SEQ ID NOS: 1-401, as shown in Table 1, or any one miRNA molecule of Table 7, Table 9, or Table 10 (e.g., 0.1 to 90% by weight), or a physiologically acceptable salt thereof, mixed with a pharmaceutically-acceptable carrier. The pharmaceutical formulations of the invention can also comprise the miRNA molecules of the invention comprising any one of SEQ ID NOS: 1-401, as shown in Table 1, or any one miRNA molecule of Table 7, Table 9, or Table 10, which are encapsulated by liposomes and a pharmaceutically-acceptable carrier. Useful pharmaceutically-acceptable carriers are water, buffered water, normal saline, 0.4% saline, 0.3% glycine, hyaluronic acid, and the like.

Pharmaceutical compositions of the invention can also comprise conventional pharmaceutical excipients and/or additives. Suitable pharmaceutical excipients include stabilizers, antioxidants, osmolality adjusting agents, buffers, and pH adjusting agents. Suitable additives include physiologically biocompatible buffers (e.g., tromethamine hydrochloride), additions of chelants (such as, for example, DTPA or DTPA-bisamide) or calcium chelate complexes (as for example calcium DTPA, CaNaDTPA-bisamide), or, optionally, additions of calcium or sodium salts (for example, calcium chloride, calcium ascorbate, calcium gluconate or calcium lactate). Pharmaceutical compositions of the invention can be packaged for use in liquid form, or can be lyophilized.

For solid pharmaceutical compositions of the invention, conventional nontoxic solid pharmaceutically-acceptable carriers can be used; for example, pharmaceutical grades of mannitol, lactose, starch, magnesium stearate, sodium saccharin, talcum, cellulose, glucose, sucrose, magnesium carbonate, and the like.

For oral administration, the therapeutic compositions can take the form of, for example, tablets or capsules prepared by conventional means with pharmaceutically acceptable excipients such as binding agents (e.g., pregelatinised maize starch, polyvinylpyrrolidone or hydroxypropyl methylcellulose); fillers (e.g., lactose, microcrystalline cellulose or calcium hydrogen phosphate); lubricants (e.g., magnesium stearate, talc or silica); disintegrants (e.g., potato starch or sodium starch glycolate); or wetting agents (e.g., sodium lauryl sulphate). The tablets can be coated by methods well known in the art. Liquid preparations for oral administration can take the form of, for example, solutions, syrups or suspensions, or they can be presented as a dry product for constitution with water or other suitable vehicle before use. Such liquid preparations can be prepared by conventional means with pharmaceutically acceptable additives such as suspending agents (e.g., sorbitol syrup, cellulose derivatives or hydrogenated edible fats); emulsifying agents (e.g., lecithin or acacia); non-aqueous vehicles (e.g., ationd oil, oily esters, ethyl alcohol or fractionated vegetable oils); and preservatives (e.g., methyl or propyl-p-hydroxybenzoates or sorbic acid). The preparations can also contain buffer salts, flavoring, coloring and sweetening agents as appropriate.

Preparations for oral administration can be suitably formulated to give controlled release of the active agent. For buccal administration the therapeutic compositions can take the form of tablets or lozenges formulated in a conventional manner. For administration by inhalation, the compositions for use according to the present invention are conveniently delivered in the form of an aerosol spray presentation from pressurized packs or a nebuliser, with the use of a suitable propellant, e.g., dichlorodifluoromethane, trichlorofluoromethane, dichlorotetrafluoroethane, carbon dioxide or other suitable gas. In the case of a pressurized aerosol the dosage unit can be determined by providing a valve to deliver a metered amount. Capsules and cartridges of e.g., gelatin for use in an inhaler or insufflate or can be formulated containing a powder mix of the therapeutic agents and a suitable powder base such as lactose or starch.

The therapeutic compositions can be formulated for parenteral administration by injection, e.g., by bolus injection or continuous infusion. Formulations for injection can be presented in unit dosage form, e.g., in ampoules or in multi-dose containers, with an added preservative. The compositions can take such forms as suspensions, solutions or emulsions in oily or aqueous vehicles, and can contain formulatory agents such as suspending, stabilizing and/or dispersing agents. Alternatively, the active ingredient can be in powder form for constitution with a suitable vehicle, e.g., sterile pyrogen-free water, before use.

Suitable enteral administration routes for the present methods include oral, rectal, or intranasal delivery. Suitable parenteral administration routes include intravascular administration (e.g. intravenous bolus injection, intravenous infusion, intra-arterial bolus injection, intra-arterial infusion and catheter instillation into the vasculature); peri- and intra-tissue injection (e.g., peri-tumoral and intra-tumoral injection, intra-retinal injection, or subretinal injection); subcutaneous injection or deposition including subcutaneous infusion (such as by osmotic pumps); direct application to the tissue of interest, for example by a catheter or other placement device (e.g., a retinal pellet or a suppository or an implant comprising a porous, non-porous, or gelatinous material); and inhalation. The miRNA molecules of the invention are administered by injection or infusion.

In addition to the formulations described previously, the therapeutic compositions can also be formulated as a depot preparation. Such long acting formulations can be administered by implantation (for example subcutaneously or intramuscularly) or by intramuscular injection. Thus, for example, the therapeutic compositions can be formulated with suitable polymeric or hydrophobic materials (for example as an emulsion in an acceptable oil) or ion exchange resins, or as sparingly soluble derivatives, for example, as a sparingly soluble salt.

Systemic administration can also be by transmucosal or transdermal means. For transmucosal or transdermal administration, penetrants appropriate to the barrier to be permeated are used in the formulation. Such penetrants are generally known in the art, and include, for example, for transmucosal administration bile salts and fusidic acid derivatives. In addition, detergents can be used to facilitate permeation. Transmucosal administration can be through nasal sprays or using suppositories. For topical administration, the compositions of the invention are formulated into ointments, salves, gels, or creams as generally known in the art. A wash solution can be used locally to treat an injury or inflammation to accelerate healing. For oral administration, the therapeutic compositions are formulated into conventional oral administration forms such as capsules, tablets, and tonics.

A composition of the present invention can also be formulated as a sustained and/or timed release formulation. Such sustained and/or timed release formulations can be made by sustained release means or delivery devices that are well known to those of ordinary skill in the art, such as those described in U.S. Pat. Nos. 3,845,770; 3,916,899; 3,536,809; 3,598,123; 4,008,719; 4,710,384; 5,674,533; 5,059,595; 5,591,767; 5,120,548; 5,073,543; 5,639,476; 5,354,556; and 5,733,566, the disclosures of which are each incorporated herein by reference. The pharmaceutical compositions of the present invention can be used to provide slow or sustained release of one or more of the active ingredients using, for example, hydropropylmethyl cellulose, other polymer matrices, gels, permeable membranes, osmotic systems, multilayer coatings, microparticles, liposomes, microspheres, or the like, or a combination thereof to provide the desired release profile in varying proportions. Suitable sustained release formulations known to those of ordinary skill in the art, including those described herein, can be readily selected for use with the pharmaceutical compositions of the invention. Thus, single unit dosage forms suitable for oral administration, such as, but not limited to, tablets, capsules, gelcaps, caplets, powders, and the like, that are adapted for sustained release are encompassed by the present invention.

In the present methods, the miRNA molecules of the current invention comprising any one of SEQ ID NOS: 1-401, as shown in Table 1, or any one miRNA molecule of Table 7, Table 9, or Table 10, can be administered to the subject either as naked RNA, in conjunction with a delivery reagent, or as a nucleic acid (e.g., a recombinant plasmid or viral vector) comprising sequences which expresses the gene product. Suitable delivery reagents for administration of the miRNA molecules include the Mims Transit TKO lipophilic reagent; lipofectin; lipofectamine; cellfectin; or polycations (e.g., polylysine), or liposomes.

The dosage administered will be a therapeutically effective amount of the composition sufficient to result in amelioration of symptoms of B cell lymphoma disease and can vary depending upon known factors such as the pharmacodynamic characteristics of the particular active ingredient and its mode and route of administration; age, sex, health and weight of the recipient; nature and extent of symptoms; kind of concurrent treatment, frequency of treatment and the effect desired.

Toxicity and therapeutic efficacy of therapeutic compositions of the present invention can be determined by standard pharmaceutical procedures in cell cultures or experimental animals, e.g., for determining the LD50 (The Dose Lethal To 50% Of The Population) and the ED50 (the dose therapeutically effective in 50% of the population). The dose ratio between toxic and therapeutic effects is the therapeutic index and it can be expressed as the ratio LD50/ED50. Therapeutic agents which exhibit large therapeutic indices are useful. Therapeutic compositions that exhibit some toxic side effects can be used.

Appropriate doses of small molecule agents depends upon a number of factors known to those or ordinary skill in the art, e.g., a physician. The dose(s) of the small molecule will vary, for example, depending upon the identity, size, and condition of the subject or sample being treated, further depending upon the route by which the composition is to be administered, if applicable, and the effect which the practitioner desires the small molecule to have upon the nucleic acid or polypeptide of the invention. Exemplary doses include milligram or microgram amounts of the small molecule per kilogram of subject or sample weight (e.g., about 1 microgram per kilogram to about 500 milligrams per kilogram, about 100 micrograms per kilogram to about 5 milligrams per kilogram, or about 1 microgram per kilogram to about 50 micrograms per kilogram.

These methods described herein are by no means all-inclusive, and further methods to suit the specific application will be apparent to the ordinary skilled artisan. Moreover, the effective amount of the compositions can be further approximated through analogy to compounds known to exert the desired effect.

The practice of aspects of the present invention can employ, unless otherwise indicated, conventional techniques of cell biology, cell culture, molecular biology, transgenic biology, microbiology, recombinant DNA, and immunology, which are within the skill of the art. Such techniques are explained fully in the literature. See, for example, Molecular Cloning A Laboratory Manual, 2nd Ed., ed. by Sambrook, Fritsch and Maniatis (Cold Spring Harbor Laboratory Press: 1989); DNA Cloning, Volumes I and II (D. N. Glover ed., 1985); Oligonucleotide Synthesis (M. J. Gait ed., 1984); Mullis et al. U.S. Pat. No. 4,683,195; Nucleic Acid Hybridization (B. D. Hames & S. J. Higgins eds. 1984); Transcription And Translation (B. D. Hames & S. J. Higgins eds. 1984); Culture Of Animal Cells (R. I. Freshney, Alan R. Liss, Inc., 1987); Immobilized Cells And Enzymes (IRL Press, 1986); B. Perbal, A Practical Guide To Molecular Cloning (1984); the treatise, Methods In Enzymology (Academic Press, Inc., N.Y.); Gene Transfer Vectors For Mammalian Cells (J. H. Miller and M. P. Calos eds., 1987, Cold Spring Harbor Laboratory); Methods In Enzymology, Vols. 154 and 155 (Wu et al. eds), Immunochemical Methods In Cell And Molecular Biology (Mayer and Walker, eds., Academic Press, London, 1987); Handbook Of Experimental Immunology, Volumes I-IV (D. M. Weir and C. C. Blackwell, eds., 1986); Manipulating the Mouse Embryo, (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y., 1986). All patents, patent applications and references cited herein are incorporated in their entirety by reference.

EXAMPLES

A number of Examples are provided below to facilitate a more complete understanding of the present invention. The following examples illustrate the exemplary modes of making and practicing the present invention. However, the scope of the invention is not limited to specific embodiments disclosed in these Examples, which are for purposes of illustration only, since alternative methods can be utilized to obtain similar results.

Example 1

Experimental Analysis: We have used an established process for the identification of miRNAs candidates by sequencing size-fractionated cDNA libraries from three normal B cell populations, including Naïve B cells, Centroblasts and Memory B cells and from a Burkitt Lymphoma cell line (Ramos). Briefly, short RNAs (sRNA) extracted from the cells were linked to adaptor oligonucleotides, reverse transcribed, PCR amplified, cloned into an expression vector, and sequenced. Individual sequences, corresponding to short RNAs, were then analyzed bioinformatically to determine whether they would constitute appropriate miRNA candidates.

Bioinformatics Analysis: The computational analysis starts with the identification of short RNA (sRNA) sequences from cloned cDNA sequences using the adaptor oligonucleotides as oriented markers. Then, each sRNA was matched to the human genome (ncbi36, October 2006) by using Megablast (NCBI).

A Bayesian evidence integration scheme was used to identify candidate sRNAs from partial matches to the human genome. Single and multiple base mismatches can occur for several reasons, including polymorphysms, sequencing errors, PCR errors that are more frequent in the 3′ and 5′ region of the miRNA cDNA, and RNA editing enzymes.

To identify sequences that correspond to real sRNAs, we used the following Bayesian approach to compute the posterior probability that a sequence is a candidate miRNA genomic match given specific base pair substitutions under the assumption that individual mutations are uncorrelated (Naïve Bayes). The individual p(m_(i)|match) and p(m_(i)) can be measured using matches to the miRNAs deposited in the miRNABase database. Sequences with p (match|m₁, m₂, . . . , m_(n))>0.5 were considered bona-fide matches to the human genome sequences and further processed together with the exact matching ones.

$\begin{matrix} {{p\left( {\left. {match} \middle| m_{1} \right.,m_{2},\ldots \mspace{14mu},m_{n}} \right)} = {p\left( {m_{1},m_{2},\ldots \mspace{14mu},\left. m_{n} \middle| {match} \right.} \right)}} \\ {\frac{p({match})}{p\left( {m_{1},m_{2},\ldots \mspace{14mu},m_{n}} \right)}} \\ {= {{p({match})}{\prod\frac{p\left( m_{i} \middle| {match} \right)}{p\left( m_{i} \right)}}}} \end{matrix}$

Resulting sRNA genome locations, both for exact and partial matches, were analyzed and merged, if necessary, to remove overlapping sequences. For each sRNA hit a sequence from −80 by upstream to +80 b.p. downstream of the sRNA match was selected leading to a set of candidate microRNA genes, including the full length precursors.

These longer sequences were then analyzed to determine if they can lead to the formation of precursor miRNA structures, including favorable energetics to for the established stem-loop secondary RNA structure required for further miRNA processing. Using a set of established mammalian miRNA's and data from the scientific literature the following criteria were established:

-   -   1. Mature sequence, which is defined by matching sRNA's, should         occupy only one arm of hairpin (not the loop).     -   2. Loop structure can not be shorter that 3 b.p. or longer than         20 b.p.     -   3. Hairpin stem should not host additional secondary RNA         structures with more that 10 b.p.     -   4. The ratio between the number of complementary base pairs and         the total number of base pairs comprising hairpin arms should be         bigger that 0.55.     -   5. Free energy should not be bigger then −20 kcal/mole.

We do not apply highly popular conservation criteria because of:

-   -   significant incompleteness of many genome assemblies especially         in intergenic regions     -   Risk to lose unique or diverged miRNA's (this invention is         directed to obtaining an exhaustive search and outcome)     -   Possibility of further experimental verification of candidates.

Since the exact sites of transcription initiation and termination for miRNA genes is not known and since concentration and temperature can vary, it is important to consider not just the optimal folding variant but an entire distribution of variants near the optimal one. We used the Vienna RNA package to perform this type of analysis, with appropriate modifications to allow the analysis of suboptimal folding variants.

Candidate miRNA genes were filtered against non-coding RNA database and repeats database (repbase). Database of human non-coding RNA's is manually compiled and contains genes like ribosomal RNA's, snRNA, tRNA's, Y-RNA and others. Comparison performed using MEGABLAST program (NCBI).

Finally, candidate miRNAs emerging from this analysis were compared to miRNABase database to identify previously known miRNAs. Candidate miRNAs that were not identified in the miRNABase were considered. Diagrams illustrating these steps are included as FIGS. 1-3.

Validation: Some of the newly identified miRNAs were tested by Northern in the corresponding population in which the sRNA was isolated.

Newly Identified miRNAs

The following have been identified as newly identified miRNAs (miRNAs) in one or more of the four B cell populations from which the size-fractionated cDNA libraries were isolated.

Example 2 Protocol for microRNA Cloning

Preparation and Labeling of Decade Marker (Ambion #7778)

Decade marker is radio labeled using [γ-³²P]ATP according to the manufacturer instructions.

Labeling of the RNA Carrier

20 pmol of #909 carrier RNA oligo is radio labeled using [γ-³²P]ATP and T4 Polynucleotide kinase (NEB).

Purification of 18-26Mers from Total RNA

A 15% denaturing polyacrylamide gel was prepared using the Sequagel System (National Diagnostics) following the manufacturer instructions. A metal plate was placed on the front of the gel and was pre-run at 50 W for 30 minutes using a running buffer of 0.5×TBE. Each RNA sample [long of total RNA] was subsequently spiked 1 μmol (2.5 n1) of [γ-³²P] labeled-#909 carrier and an equal volume of 2×RNA loading buffer (Ambion) was added. For total RNA, extraction procedures like Trizol Reagent (Invitrogen) that purify all sizes RNA are recommended. Samples were then boiled for 5 minutes and were loaded with decade marker. After samples were loaded onto the gel, it was run for 3-4 hours at 50 W. After the gel was run, the apparatus was disassemble and one of the glass pieces was removed. The hot area of the gel was cut out and placed on the side of the lane for alignment with the markers. The gel was subsequently covered with a plastic wrap and was exposed to a phosphoimage screen for about 30 minutes to an 1 hour. The gel image was printed at 100% magnification and placed under the glass. It was then aligned with the hot spot that had been previously cut. The RNA band was cut approximately from 18mers up to 26mers using the marker and the 1 nt ladder below the carrier as reference. RNA was eluted from the gel using 2 ml of 0.3M NaCl in DEPC H₂O, and the eluted sample was subsequently rotated overnight at 4° C. The supernatant was then recovered and 450 nl (max) was distributed into separate tubes. A 2× volume of 100% EtOH and 10 ng glycogen were added to each tube, which were then incubated at −20° C. for at least 2 hours. Samples were then spun for 30 minutes at 14,000 rpm, and were subsequently washed with 75% EtOH. The pellets were then air dried and dissolved in 10 μl, DEPC H₂O.

3′-Adaptor Ligation and Purification

The following were first mixed in a tube and were then incubated at 25° C. for 6 hours:

1.5 μl 10X 3′ Ligation Buffer* 7.5 μl purified small RNA   2 μl App. 17.91 [100 pmol/μl] (adenylated) 1.5 μl T4 RNA Ligase [30 U/μl] (Amersham) 2.5 μl H₂O *500 mM Tris-HCl (pH 7.5), 100 mM MgCl₂, 100 mM DTT, 600 μg/ml BSA. Store at −20° C.

15 μl, of 2× Loading Buffer (Ambion) was added to the samples and boiled for 5 minutes, which were then loaded onto a 12% denaturing polyacrylamide gel thata was prepared using the Sequagel System (National Diagnostics) following the manufacturer instructions. A metal plate was placed on the front of the gel and was pre-run at 50 W for 30 minutes using a running buffer of 0.5×TBE. The decade RNA marker and 1 μl, of [γ-³²P] labeled-#909 carrier was then loaded into separated lanes and run for 3-4 hours at 50 W. After the gel was run, the apparatus was disassemble and the gel was exposed to a phosphoimage screen for 2-4 hours. The gel image was printed at 100% magnification and placed under the glass. The ligation product ranging approximately from 35 up to 42-45 nt was cut and RNA was eluted from the gel using 2 ml of 0.3M NaCl in DEPC H₂O. The eluted sample was subsequently rotated overnight at 4° C. The supernatant was then recovered and 450 μl (max) was distributed into separate tubes. A 2× volume of 100% EtOH and 10 mg glycogen were added to each tube, which were then incubated at −20° C. for at least 2 hours. Samples were then spun for 30 minutes at 14,000 rpm, and were subsequently washed with 75% EtOH. The pellets were then air dried and dissolved in 12 μl DEPC H₂O.

5′-Adaptor Ligation and Purification

The following were first mixed in a tube and were then incubated at 25° C. for 6 hours:

1 μl 10X Ligation Buffer (Amersham) 6 μl purified small RNA 2 μl 17.93 oligo [100 pmol/μl] 1 μl T4 RNA Ligase [30 U/μl] (Amersham)

Samples can be stored at 4° C. after the 6 hour incubation until further processed. 10 μl of 2× Loading Buffer (Ambion) was added to the samples and boiled for 5 minutes, which were then loaded onto a 10% denaturing polyacrylamide gel thata was prepared using the Sequagel System (National Diagnostics) following the manufacturer instructions. A metal plate was placed on the front of the gel and was pre-run at 50 W for 30 minutes using a running buffer of 0.5×TBE. The decade RNA marker and 1 μl of [γ-32P] labeled-#909 carrier was then loaded into separated lanes and run for 3 hours at 50 W. After the gel was run, the apparatus was disassemble and the gel was exposed to a phosphoimage screen for 12-18 hours. The gel image was printed at 100% magnification and placed under the glass. The ligation product ranging approximately from 35 up to 48-62 nt was cut and RNA was eluted from the gel using 2 ml of 0.3M NaCl in DEPC H₂O. The eluted sample was subsequently rotated overnight at 4° C. The supernatant was then recovered and 450 nl (max) was distributed into separate tubes. A 2× volume of 100% EtOH and 10 ng glycogen were added to each tube, which were then incubated at −20° C. for at least 2 hours. Samples were then spun for 30 minutes at 14,000 rpm, and were subsequently washed with 75% EtOH. The pellets were then air dried and dissolved in 20 nl DEPC H₂O.

Reverse Transcription

The following were first mixed in a PCR tube and were then incubated at 80° C. for 2 minutes:

10 μl ligated RNA  3 μl #918 primer [100 μM]

The sample was subsequently spun down to cool. Using the First Strand Synthesis System kit (Invitrogen), the following was added to the sample which was then incubated at 48° C. for 2 minutes:

5 μl 5X First Strand Buffer 7 μl dNTPs 3 μl 0.1M DTT

3 μl of SuperScriptII (Invitrogen) was then added to the sample, which was further incubated at 48° C. for 1 hour. Samples can then be stored at −20° C. until further processing.

PCR Amplification

The PCR reaction was prepared as follows:

-   -   5% Reverse Transcription product     -   1×PCR buffer     -   1.5 mM MgCl₂     -   0.8 mM dNTP     -   2 μM #913 primer     -   2 μM #914 primer     -   2 U Taq polymerase

The sample was then amplified according to the following protocol:

$\left. \begin{matrix} \begin{matrix} \begin{matrix} \begin{matrix} {2^{\prime}94^{\circ}\mspace{14mu} {C.}} \\ {30^{''}94^{\circ}\mspace{14mu} {C.}} \end{matrix} \\ {30^{''}52^{\circ}\mspace{14mu} {C.}} \end{matrix} \\ {30^{''}72^{\circ}\mspace{14mu} {C.}} \end{matrix} \\ {10^{\prime}72^{\circ}\mspace{14mu} {C.}} \end{matrix} \right\} \times 30\mspace{14mu} {cycles}$

The sample was then extracted using Phenol/CIA and was precipitated with sodium acetate. The sample was then spun for 30 minutes at 14,000 rpm, and was subsequently washed with 75% EtOH. The pellet was then air dried and dissolved in 45 DEPC H₂O.

PACI Digestion

The digestion was prepared as follows and was subsequently incubate at 37° C. for 90 minutes:

-   -   1×NEB Buffer 1     -   1×BSA     -   1,000 U/μl PACI     -   42.5 μl DNA

The sample was then extracted using Phenol/CIA and was precipitated with sodium acetate. The sample was then spun for 30 minutes at 14,000 rpm, and was subsequently washed with 75% EtOH. The pellet was then air dried and dissolved in 15 μl DEPC H₂O, Non-denaturing Loading Buffer was added to the sample and the sample was subsequently loaded onto a 12% non-denaturing acrylimide gel using pUC19/Sau3AI as a marker (Ambion #7760), which was run at 13 W for approximately 1 hr. The gel was then stained with 1:10,000 SybrGold (Molecular Probes #S-11494) in 0.5×TBE for 30 to 60 minutes. The smear of digested samples was then cut between 46 and 75 nt according to the marker size. Cut out samples were then eluted with 500 μl of 0.3M NaCl in 1.5 ml screw top tubes, rotating overnight at 4° C. Samples were spun briefly, and about 450 μl of eluted volume was recovered for each sample. The samples were then extracted using Phenol/CIA and were precipitated with sodium acetate. The samples were then spun for 30 minutes at 14,000 rpm, and were subsequently washed with 75% EtOH. The pellet was then air dried and dissolved in 10 μl DEPC H₂O. If the amount of digested product on the gel appeared to be low, a second PCR amplification was required.

Second PCR Amplification

The PCR reaction was prepared as follows:

-   -   2% Reverse Transcription product     -   1×PCR buffer     -   1.5 mM MgCl₂     -   0.8 mM dNTP     -   2 μM #913 primer     -   2 μM #914 primer     -   2 U Taq polymerase

The sample was then amplified according to the following protocol:

$\left. \begin{matrix} \begin{matrix} \begin{matrix} \begin{matrix} {2^{\prime}94^{\circ}\mspace{14mu} {C.}} \\ {30^{''}94^{\circ}\mspace{14mu} {C.}} \end{matrix} \\ {30^{''}52^{\circ}\mspace{14mu} {C.}} \end{matrix} \\ {30^{''}72^{\circ}\mspace{14mu} {C.}} \end{matrix} \\ {10^{\prime}72^{\circ}\mspace{14mu} {C.}} \end{matrix} \right\} \times 20\mspace{14mu} {cycles}$

The amount of product generated was examined via adding non-denaturing Loading Buffer to 5 μl of sample, which was then loaded onto a 12% non-denaturing acrylimide gel, and was subsequently run at 13 W for approximately 1 hr. Samples were cut out and eluted with 500 μl of 0.3M NaCl in 1.5 ml screw top tubes, rotating overnight at 4° C. Samples were spun briefly, and about 450 μl of eluted volume was recovered for each sample. The samples were then extracted using Phenol/CIA and were precipitated with sodium acetate. The samples were then spun for 30 minutes at 14,000 rpm, and were subsequently washed with 75% EtOH. The pellet was then air dried and dissolved in 45 DEPC H₂O, Samples were further quantified, wherein amount of sampled needed to be within the range of 200-500 ng/μl.

BanI Digestion

The following digestion was prepared for each sample as follows, and were subsequently incubated at 37° C. for 2.5 hours:

-   -   1×NEB Buffer 4     -   1×BSA     -   1000 U/μl BanI

Samples were then extracted using Phenol/CIA and were precipitated with sodium acetate. The samples were spun for 30 minutes at 14,000 rpm, and were subsequently washed with 75% EtOH. The pellet was then air dried and dissolved in 26 μl DEPC H₂O.

Concatemerization

The following sample was mixed in a 0.5 or 0.2 ml tube as follows, and was incubated at 25° C. for 2 hours:

26 μl Digested DNA  3 μl 10X Ligation Buffer (Roche)  1 μl T4 DNA Ligase [5 U/μl] (Roche)

1 μl of dNTP as well as 1 μl of DNA Polymerase I was subsequently added, and the sample was then incubated at 16° C. for 1 hour. The sample was run on a 2% LM agarose-EtBr gel in 0.5×TBE with 100 by Ladder loaded in the first lane. The concatamers were then cut starting from about 500 by and above. Samples were then gel purified with QIAquick gel extraction kit (Qiagen cat. #28706), using the manufacturer's instructions.

Vector Digestion

The pCR2.1-TOPO (Invitrogen, 3.9 Kb) vector was digested according to the manufacturer's instructions for the EcoRV enzyme (NEB). The samples was then subjected to gel electrophoresis using a 1% agarose gel. The sample was then gel purified with QIAquick gel extraction kit (Qiagen cat. #28706), using the manufacturer's instructions.

Ligation

The ligation reaction was set up using the Rapid Ligation Kit (Roche cat. #11635379001) according to the procedure recommended by the manufacturer. 10 μl of the ligation product was used for transformation in high efficiency bacteria (One Shot OminMAX-Invitrogen cat. #C8540-03). X-gal/IPTG Ampicillin agarose plates were prepared fresh and a specified volume of the transformation reaction was spread onto the plates. Plated samples were then incubated overnight at 37° C. Colonies were then obtained the next day and grown in 30 μl of LB medium at 37° C. for 1 hour. Once DNA was obtained from the amplified bacteria, 2.5 μl was used as template for the colony PCR reaction.

Colony PCR

The PCR reaction was prepared as follows:

-   -   2.5 μl template     -   1×PCR buffer     -   1.5 mM MgCl₂     -   0.8 mM dNTP     -   0.2 μM #913 primer     -   0.2 μM #914 primer     -   1 U Taq polymerase

The sample was then amplified according to the following protocol:

$\left. \begin{matrix} \begin{matrix} \begin{matrix} {5^{\prime}94^{\circ}\mspace{14mu} {C.}} \\ {30^{''}94^{\circ}\mspace{14mu} {C.}} \end{matrix} \\ {30^{''}52^{\circ}\mspace{14mu} {C.}} \\ {30^{''}72^{\circ}\mspace{14mu} {C.}} \end{matrix} \\ {10^{\prime}72^{\circ}\mspace{14mu} {C.}} \end{matrix} \right\} \times 30\mspace{14mu} {cycles}$

1 μl of PCR product was examined on a1.5% agarose gel and clones were selected carrying an insert longer than 350 bp. Samples were then confirmed by sequencing.

Oligonucleotides

909 carrier RNA oligo: 5′-(P)-UGUCAGUUUGUUAAUUAACCCAA-3′ [SEQ ID NO: 517] 5′ phosphate; 3′ none; includes PACI restriction site

App. 17.91 (3′ end Donor oligo): 5′-rAppCTGTAGGCACCATCAAT/3ddC-3′ [SEQ ID NO: 518] 5′ adenylated containing a pyrophosphate; 3′ modified terminal dideoxy-C(ddC) (available from IDT Inc. as the “miRNA cloning linker”); includes BanI restriction site.

17.93 (5′ end Acceptor oligo): 5′-ATCGTAGGCACCTGAAA-3′ [SEQ ID NO: 519] It includes BanI restriction site.

#918 RT primer oligo: 5′-ATTGATGGTGCCTAC-3′ [SEQ ID NO: 520] It includes BanI restriction site.

#913 (5′ PCR primer oligo): 5′-ATCGTAGGCACCTGAAA-3′ [SEQ ID NO: 521] It includes BanI restriction site.

#914 (3′ PCR primer oligo): 5′-ATTGATGGTGCCTACAG-3′[SEQ ID NO: 522] It includes BanI restriction site.

Screening/Sequencing Primers:

M13F 5′-GTAAAACGACGGCCAG-3′ [SEQ ID NO: 523] M13R 5′-CAGGAAACAGCTATGAC-3′ [SEQ ID NO: 524]

-   References: Lau et al., Science (2001) 294:858-62; Chen et al.,     Science (2004) 303: 83-6

Example 3 Identification of the Human Mature B Cells miRNome

The discovery of microRNAs (miRNAs) has added a new dimension to the mechanisms that regulate gene expression in normal cell development. Initial evidence also shows that structural or functional alterations of miRNAs are associated with tumorigenesis. The full set of microRNAs (miRNAs) in the human genome is not known. Since presently known miRNAs have been identified by virtue of their abundant expression in a few cell types, tissue-specific miRNAs may remain unrevealed. To understand the role of miRNAs in B-cell function and lymphomagenesis, short-RNA libraries were generated from normal human B cells at different stages of development (naïve, germinal-center, memory) and from a Burkitt lymphoma cell-line. The combination of cloning and computational analysis identified 401 miRNA (miRNome) expressed during normal B-cell development and/or in transformed B-cells. Most notably, this analysis identified 272 new miRNAs that were not previously reported. Numerous miRNAs are expressed in a stage-specific as well as transformation-specific fashion, suggesting specific functional roles. These results significantly increase the number of presently known miRNAs and provide a resource for the study of their role in B-cell development, immune function, and lymphomagenesis.

A new level of post-transcriptional regulation has been revealed with the discovery of microRNAs (miRNAs) a class of short-RNAs that impair translation or induce mRNA degradation by binding to the 3′ untranslated region of target mRNA^(1,2). The most recent release of the miRBase database (v.11.0)³′⁴ reports 839 human miRNAs, but the discovery of miRNAs is still an on-going process with variable predictions about the total number of miRNAs expressed in mammalian cells ranging from one thousand to several thousands^(5,6). The reported miRNAs have been identified from a limited number of cell types or from tissues whose cellular heterogeneity may favor the identification of ubiquitous and abundant miRNA. In fact, a recent report aiming to the identification of the miRNA expression profiles from 26 different mammalian tissues and cell types led to the discovery of only 12 new human miRNA⁷. These findings led to the conclusion that most miRNAs are known and that most of them are ubiquitously expressed. Nonetheless, additional analyses of purified cell populations may lead to the identification of tissue- and stage of differentiation-specific miRNAs, as has been the case for messenger RNAs.

The role of specific miRNAs in B-cell immunity and malignancy has only just begun to be elucidated. Using mouse models, miR-155 has been demonstrated to affect regulation of germinal center response through modulation of cytokine production⁸′⁹. Recently, miR-150 has been shown to target c-Myb, a critical transcription factor involved in the control of B cell differentiation¹⁰. In B cell lymphomas, 13q31 amplification has been associated with the over-expression of the miR-17-92 cluster and its enforced expression in a murine B cell lymphoma model showed a role in accelerating tumor development¹¹. Furthermore, miR-15a and miR-16 have been implicated in the pathogenesis of B cell chronic lymphocytic leukemia (CLL)^(12,13).

To further explore the role of miRNAs in B cell function and lymphomagenesis, this study was aimed at identifying the miRNAs expressed (miRNome) in the human mature B-cell compartment, including naïve, germinal centers (GCs), and memory B cells. These B cell subpopulations are relevant for the development of antibody-mediated immunity as well as for tumorigenesis, since common human B-cell malignancies originate from the malignant transformation of GC B cells (most B-cell non-Hodgkin lymphomas, B-NHL), or naïve and memory B cells (mantle cell lymphoma and chronic lymphocytic leukemia)^(14,15). Using a combination of cloning and computational analysis, we report the identification of 401 miRNA representing the mature B cell miRNome, including 272 new miRNAs, and illustrate their pattern of expression during B cell differentiation and transformation.

Construction of Short-RNA Libraries from Human B Cell Sub Populations

Short-RNA libraries were generated by cloning RNA fractions of 18-30 nt from human centroblasts, naïve and memory B cells purified from tonsils as well as from the Burkitt lymphoma cell line Ramos, which is representative of malignant transformation of GC B cells (FIG. 10). Approximately 3,500 sequences were analyzed from each library, corresponding to 13,991 total short-RNAs (2,661 non-redundant sequences). Using a bootstrap approach^(16,17), we estimated the expected number of miRNAs that could be predicted using our computational pipeline from various size of short-RNA libraries. The results suggested that at the current sequencing depth, 80% of the possible predictions have been identified FIG. 17).

The cloned sequences were matched to the human genome assembly from March 2006 (hg18) to retrieve the genomic regions from which the short-RNAs originated. One or more genomic locations were identified for approximately 80% of the cloned sequences considering both perfect matches and single mismatches. Consistent with previous observations, 3′-end mismatches were the most common and showed a clear preference for A in the last position (18. Approximately 546 short-RNA sequences did not align to the human genome according to the above criteria and are likely due to PCR errors introduced during the cloning procedure (FIG. 11). Nevertheless, a small subset of these short-RNAs lacking a corresponding genomic region in Homo sapiens have been cloned with high frequencies in multiple libraries and showed differential expression during B cell differentiation, suggesting they may represent bona fide short-RNA species. However, given the difficulty of assigning genomic coordinates to these sequences they were omitted from further analyses.

Computational Prediction of miRNA Precursors

In order to identify candidate miRNAs among the cloned sequences, we developed a computational pipeline aiming at the identification of potential miRNA precursors based on the investigation of their genomic location and folding characteristics (FIG. 18 and Supplementary Methods). Briefly, short RNA sequences were mapped to the human genome and candidate genomic precursors (+/−90 nt) were then retrieved and analyzed for secondary structure, size and energy of the loop, and number of complimentary base pairs in the stem of the loop (Supplementary Methods). The prediction was performed on the full set of non redundant short-RNAs (2,115 sequences) for which one or more genomic locations could be identified (FIG. 11). The analysis led to the identification of candidate precursors for 1,667 short-RNA sequences, which were then clustered to account for the variability observed at the miRNA 3′-ends (and less dramatically at the 5′-ends) including nucleotide substitutions and deletions. Moreover, editing of miRNA has been previously reported^(19,20) and a few cases compatible with an editing process have been observed in the libraries described here. Since most clusters of short-RNA are affected by these modifications, we applied the following criteria in order to define mature miRNA sequences: i) each nucleotide must occur in more than 50% of the cloned sequences; sequences supported by a short-RNA set that is fully contained in a larger set were eliminated while matching clusters with partial containment were merged (Supplementary Methods). After annotating each candidate mature miRNA, those which had evidences of originating from mRNA, rRNA, tRNA and other ncRNA (yRNA, sn/snoRNA) and occurred once were eliminated. Overall, the computational analysis identified 401 mature miRNA (Table 1).

The human miRNAs deposited in the miRBase database (v.11.0) were identified only at the end of the analysis and any lack of prediction was checked by matching the starting set with the final predictions. Overall, previously reported miRNA represented 32% of cloned and computationally validated mature miRNA. In addition, our analysis identified 146 previously reported precursors as well as 761 genomic locations containing precursors potentially coding for 272 new mature miRNA and 19 new precursors for 8 mature miRNAs deposited in the miRBase database (FIG. 12 and Table 1).

TABLE 1A List of known and newly identified mature miRINAs. SEQ ID ID NO. Mature miRNA sequence Annotations CU-1026 1 TGTAGTGTTTCCTACTTTATGGA Mature:hsa-miR-142-3p:MIMAT0000434 CU-1064 2 TAGCTTATCAGACTGATGTTGA Mature:hsa-miR-21:MIMAT0000076 CU-1061 3 TAAAGTGCTTATAGTGCAGGTAG Mature:hsa-miR-20a:MIMAT0000075 CU-1035 4 TAGCAGCACATCATGGTTTACA Mature:hsa-miR-15b:MIMAT0000417 CU-1037 5 TAGCAGCACGTAAATATTGGCG Mature:hsa-miR-16:MIMAT0000069 CU-1001 6 TGAGGTAGTAGGTTGTATAGTT Mature:hsa-let-7a:MIMAT0000062 CU-1116 7 TATTGCACTTGTCCCGGCCTGT Mature:hsa-miR-92a:MIMAT0000092 CU-1018 8 TCCCACCGCTGCCACCA Mature:hsa-miR-1280:MIMAT0005946 CU-1006 9 TGAGGTAGTAGATTGTATAGTT Mature:hsa-let-7f:MIMAT0000067 CU-1079 10 TAGCACCATCTGAAATCGGTTA Mature:hsa-miR-29a:MIMAT0000086 CU-1033 11 TAGCAGCACATAATGGTTTGT Mature:hsa-miR-15a:MIMAT0000068 CU-1124 12 CCCATAAAGTAGAAAGCACTA Mature:hsa-miR-142-5p:MIMAT0000433 CU-1007 13 TGAGGTAGTAGTTTGTACAGTT Mature:hsa-let-7g:MIMATOOOO414 CU-1008 14 TGAGGTAGTAGTTTGTGCTGTT Mature:hsa-let-7i:MIMATOOOO415 CU-1082 15 TAGCACCATTTGAAATCGGTTA Mature:hsa-miR-29c:MIMATOOOO681 CU-1085 16 TGTAAACATCCTACACTCTCAGC Mature:hsa-miR-30c:MIMAT0000244 CU-1039 17 CAAAGTGCTTACAGTGCAGGTAG Mature:hsa-miR-17:MIMAT0000070 CU-1071 18 CATTGCACTTGTCTCGGTCTGA Mature:hsa-miR-25:MIMAT0000081 CU-1046 19 CAACGGAATCCCAAAAGCAGCTG Mature:hsa-miR-191:MIMATOOOO440 CU-1057 20 TGTGCAAATCCATGCAAAACTGA Mature:hsa-miR-19b:MIMAT0000074 CU-1024 21 TACCACAGGGTAGAACCACGGA Mature:hsa-miR-140-3p:MIMAT0004597 CU-1084 22 TGTAAACATCCTACACTCAGCT Mature:hsa-miR-30b:MIMAT0000420 CU-1003 23 TGAGGTAGTAGGTTGTGTGGTT Mature:hsa-let-7b:MIMAT0000063 CU-1080 24 TAGCACCATTTGAAATCAGTGTT Mature:hsa-miR-29b:MIMAT0000100 CU-1012 25 TAAAGTGCTGACAGTGCAGAT Mature:hsa-miR-106b:MIMAT0000680 CU-1092 26 TCCCTGTCCTCCAGGAGCTC Mature:hsa-miR-339-5p:MIMAT0000764 CU-1072 27 TTCAAGTAATCCAGGATAGGCT Mature:hsa-miR-26a:MIMAT0000082 CU-1118 28 CAAAGTGCTGTTCGTGCAGGTAG Mature:hsa-miR-93:MIMAT0000093 CU-1067 29 TGTCAGTTTGTCAAATACCCCA Mature:hsa-miR-223:MIMAT0000280 CU-1027 30 TGAGAACTGAATTCCATGGGTT Mature:hsa-miR-146a:MIMAT0000449 CU-1029 31 TCTCCCAACCCTTGTACCAGT Mature:hsa-miR-150:MIMAT0000451 CU-1015 32 TCCCTGAGACCCTAACTTGTGA Mature:hsa-miR-125b:MIMAT0000423 CU-1093 33 TCTCACACAGAAATCGCACCCGTC Mature:hsa-miR-342-3p:MIMAT0000753 CU-1016 34 GTCCCTGTTCGGGCGCCA Mature:hsa-miR-1274b:MIMAT0005938 CU-1056 35 TGTGCAAATCTATGCAAAACTGA Mature:hsa-miR-19a:MIMAT0000073 CU-1086 36 TGTAAACATCCCCGACTGGAAG Mature:hsa-miR-30dMIMAT0000245 CU-1065 37 AGCTACATTGTCTGCTGGGTT Mature:hsa-miR-221:MIMAT0000278 CU-1004 38 AGAGGTAGTAGGTTGCATAGTT Mature:hsa-let-7d:MIMAT0000065 CU-1011 39 CCGCACTGTGGGTACTTGCT Star:hsa-miR-106b*:MIMAT0004672 CU-1010 40 AGCAGCATTGTACAGGGCTATGA Mature:hsa-miR-103:MIMAT0000101 CU-1050 41 AACTGGCCCTCAAAGTCCCGCT Mature:hsa-miR-193b:MIMATOOO2819 CU-1091 42 GCCCCTGGGCCTATCCTAGAA Mature:hsa-miR-331-3p:MIMAT0000760 CU-1023 43 AGCTGGTGTTGTGAATCAGGCCGT Mature:hsa-miR-138:MIMAT0000430 CU-1101 44 TGAGGGGCAGAGAGCGAGACTT Mature:hsa-miR-423-5p:MIMAT0004748 CU-1066 45 AGCTACATCTGGCTACTGGGTCT Mature:hsa-miR-222:MIMAT0000279 CU-1017 46 GTGGGGGAGAGGCTGTA Mature:hsa-miR-1275:MIMAT0005929 CU-5001 47 CTATACGACCTGCTGCCTTTC Star:hsa-let-7d*:MIMAT0004484 CU-1032 48 TTAATGCTAATCGTGATAGGGGT Mature:hsa-mIR-155:MIMAT0000646 CU-1108 49 AGGGGGAAAGTTCTATAGTC Mature:hsa-miR-625:MIMAT0003294 CU-1055 50 ACAGTAGTCTGCACATTGGTT Mature:hsa-miR-199b-3p:MIMAT0004563 CU-1042 51 AACATTCAACGCTGTCGGTGAGTT Mature:hsa-miR-181a:MIMAT0000256 CU-1113 52 TGGAAGACTAGTGATTTTGTTGT Mature:hsa-miR-7:MIMAT0000252 CU-1098 53 TAATGCCCCTAAAAATCCTTAT Mature:hsa-miR-365:MIMAT0000710 CU-1052 54 TAGCAGCACAGAAATATTGGCA Mature:hsa-miR-195:MIMAT0000461 CU-1568 55 TGAGGTAGTAGGTTGTAT Mature:hsa-let-7c:MIMAT0000064 CU-1103 56 TCCTGTACTGAGCTGCCCCGAG Mature:hsa-miR-486-5p:MIMATOOO2177 CU-1014 57 TCCCTGAGACCCTTTAACCTGTGA Mature:hsa-miR-125a-5p:MIMAT0000443 CU-1068 58 ATCACATTGCCAGGGATTTCCA Mature:hsa-miR-23a:MIMAT0000078 CU-1019 59 TCACAGTGAACCGGTCTCTTT Mature:hsa-mIR-128:MIMAT0000424 CU-1076 60 CACTAGATTGTGAGCTCCTGGA Mature:hsa-miR-28-3p:MIMAT0004502 CU-1111 61 CAACAAATCACAGTCTGCCAT Star:hsa-miR-7-1*:MIMAT0004553 CU-1062 62 CAAAGTGCTTATAGTGCAGGTAG Mature:hsa-miR-20b-mm:MIMAT0001413 CU-1115 63 AGGTTGGGATCGGTTGCAATGCT Star:hsa-miR-92a-1*:MIMAT0004507 CU-1126 64 TCATTCATTGCTGTCGGTGGGTT Mature:hsa-mir-181b-1:MI0000270 CU-1096 65 TCCCCCAGGTGTGATTCTGATT Mature:hsa-miR-361-3p:MIMAT0004682 CU-1054 66 CCCAGTGTTCAGACTACCTGTTC Mature:hsa-miR-199a-5p:MIMAT0000231 CU-1125 67 ACCAATATTACTGTGCTGCTT Star:hsa-miR-16-2*:MIMAT0004518 CU-1087 68 TGTAAACATCCTTGACTGGAAGCT Mature:hsa-miR-30e:MIMAT0000692 CU-1045 69 TAAGGTGCATCTAGTGCAGATA Mature:hsa-miR-18a:MIMAT0000072 CU-1069 70 ATCACATTGCCAGGGATTACCA Mature:hsa-miR-23b:MIMAT0000418 CU-1044 71 ACTGCCCTAAGTGCTCCTTCTG Star:hsa-miR-18a*:MIMAT0002891 CU-1083 72 TGTAAACATCCTCGACTGGA Mature:hsa-miR-30a:MIMAT0000087 CU-1009 73 TACAGTACTGTGATAACTGAAG Mature:hsa-miR-101:MIMAT0000099 CU-1030 74 CTAGACTGAAGCTCCTTGAGG Mature:hsa-miR-151-3p:MIMAT0000757 CU-1095 75 TGGCAGTGTCTTAGCTGGTTGTT Mature:hsa-miR-34a:MIMAT0000255 CU-1119 76 TGAGGTAGTAAGTTGTATTGTT Mature:hsa-miR-98:MIMAT0000096 CU-1028 77 TGAGAACTGAATTCCATAGGCTGT Mature:hsa-miR-146b-5p:MIMAT0002809 CU-1031 78 TCGAGGAGCTCACAGTCTAGTA Mature:hsa-miR-151-5p:MIMAT0004697 CU-1100 79 AGCTCGGTCTGAGGCCCCTCAG Mature:hsa-miR-423-3p:MIMAT0001340 CU-1038 80 ACTGCAGTGAAGGCACTTGTAG Star:hsa-miR-17*:MIMAT0000071 CU-1040 81 ACCATCGACCGTTGATTGTA Star:hsa-miR-181a*:MIMAT0000270 CU-1053 82 TCACCACCTTCTCCACCCAG Mature:hsa-miR-197:MIMAT0000227 CU-1075 83 TCACAGTGGCTAAGTTCTG Mature:hsa-miR-27b:MIMAT0000419 CU-1073 84 TCAAGTAATTCAGGATAGGTT Mature:hsa-miR-26b:MIMAT0000083 CU-1100 85 GGGTTTACGTTGGGAGAACT Mature:hsa-miR-629:MIMAT0004810 CU-1088 86 TGGGTTGAGAGGGCGA Mature:hsa-miR-320a:MIMAT0000510 CU-1005 87 TGAGGTAGGAGGTTGTATAGTT Mature:hsa-let-7e:MIMAT0000066 CU-1081 88 TGACCGATTTCTCCTGGTGTT Star:hsa-miR-29c*:MIMAT0004673 CU-1117 89 TATTGCACTCGTCCCGGCC Mature:hsa-miR-92b:MIMAT0003218 CU-1094 90 GGGGTGCTATCTGTGATTGA Mature:hsa-miR-342-5p:MIMAT0004694 CU-1021 91 GCATGGGTGGTTCAGTGGTAGAA Mature:hsa-miR-1308:MIMAT0005947 CU-1089 92 CTGGCCCTCTCTGCCCTT Mature:hsa-miR-328:MIMAT0000752 CU-1047 93 CTGACCTATGAATTGACAGC Mature:hsa-miR-192:MIMAT0000222 CU-1099 94 CTCCTGACTCCAGGTCCTGTG Star:hsa-miR-378*:MIMAT0000731 CU-1105 95 CGTCAACACTTGCTGGTT Mature:hsa-miR-505:MIMAT0002876 CU-1034 96 CGAATCATTATTTGCTGCTCT Star:hsa-miR-i 5b*:MIMAT0004586 CU-5002 97 CATCGGGAATGTCGTGTCCGCC Star:hsa-mir-425*:M10001448 CU-1025 98 CAGTGGTTTTACCCTATGGTA Mature:hsa-miR-140-5p:MIMAT0000431 CU-1022 99 CAGTGCAATGATGAAAGGGCAT Mature:hsa-miR-130b:MIMAT0000691 CU-1104 100 CAGCAGCACACTGTGGTTTGT Mature:hsa-miR-497:MIMAT0002820 CU-1106 101 CACGCTCATGCACACACCCAC Mature:hsa-miR-574-3p:M 1MAT0003239 CU-1077 102 AAGGAGCTCACAGTCTATTGAG Mature:hsa-miR-28-5p:MIMAT0000085 CU-1123 103 TTGGTCCCCTTCAACCAGCTGT Mature:hsa-miR-133a:MIMAT0000427 CU-1074 104 TTCACAGTGGCTAAGTTCCGA Mature:hsa-miR-27a:MIMAT0000084 CU-1097 105 TTATCAGAATCTCCAGGGGTAA Mature:hsa-miR-361-5p:MIMAT0000703 CU-1043 106 TGGAGAGAAAGGCAGTTCCTGAT Mature:hsa-miR-185:MIMAT0000455 CU-1112 107 TGAGACCTCTGGGTTCTGAGCT Mature:hsa-miR-769-5p:MIMAT0003886 CU-1122 108 TCTTTGGTTATCTAGCTGTATGA Mature:hsa-miR-9:MIMAT0000441 CU-1109 109 TCTAGTAAGAGTGGCAGTCGA Mature:hsa-miR-628-3p:MIMAT0003297 CU-1090 110 TATTGCACATTACTAAGTTGA Mature:hsa-miR-32:MIMAT000009O CU-1013 111 TAAGGCACGCGGTGAATGCCA Mature:hsa-miR-124:MIMAT0000422 CU-1058 112 TAACACTGTCTGGTAACGATGTT Mature:hsa-miR-200a:MIMAT0000682 CU-1059 113 GTGAAATGTTTAGGACCACTAG Mature:hsa-miR-203:MIMAT0000264 CU-1102 114 GCAGTCCATGGGCATATACACA Mature:hsa-miR-455-3p:MIMAT0004784 CU-1107 115 GAGCTTATTCATAAAAGTGCAG Mature:hsa-miR-590-5p:MIMAT00032 CU-1114 116 CTGCCCTGGCCCGAGGGACCGA Mature:hsa-miR-874:MIMAT0004911 CU-1002 117 CTATACAACCTACTGCCTTC Star:hsa-let-7b*:MIMAT00044 CU-1049 118 CGGGGTTTTGAGGGCGAGATGA Star:hsa-miR-193b*:MIMAT0004767 CU-1051 119 CCAGTGGGGCTGCTGTTATCTG Star:hsa-miR-194*:MIMAT0004671 CU-1036 120 CCAGTATTAACTGTGCTGCTGA Star:hsa-miR-16-1*:MIMAT0004489 CU-1121 121 CACCCGTAGAACCGACCTTGCG Mature:hsa-miR-99b:MIMAT0000689 CU-1120 122 CAAGCTCGTGTCTGTGGGTCCG Star:hsa-miR-99b*:MIMAT0004678 CU-1063 123 CAACACCAGTCGATGGGCTGTA Star:hsa-miR-21*:MIMAT0004494 CU-1070 124 AGGCGGAGACTTGGGCAATT Star:hsa-miR-25*:MIMAT0004498 CU-1060 125 ACTGCATTATGAGCACTTAAAGT Star:hsa-miR-20a*:MIMAT0004493 CU-1078 126 ACTGATTTCTTTTGGTGTTCA Star:hsa-miR-29a*:MIMAT0004503 CU-1020 127 ACTCGGCGTGGCGTCGGTCGTGG Mature:hsa-miR-1307:MIMAT0005951 CU-1041 128 ACCACTGACCGTTGACTGTAC Star:hsa-miR-181a-2*:MIMAT0004558 CU-1048 129 AACTGGCCTACAAAGTCCCAGT Mature:hsa-miR-193a-3p:MIMAT0000459 CU-1127 130 TGTCTGAGCGTCGCT reCursor:hsa-mir-1826:MI0008194 CU-1132 131 GCCGGGTACTTTCGTATTTT NEW CU-1137 132 GCTAAGGAAGTCCTGTGCTCAGTTTT NEW CU-1130 133 CCCGGGTTTCGGCACCA NEW CU-1136 134 TCGGGCGGGAGTGGTGGCTTT NEW CU-1383 135 TAGAGGCACCGCCTGCCCA NEW CU-1131 136 CGGGGCGCGGCCTCGCTG NEW CU-1135 137 CCCACGGGGGTCTCCGGGCGAG NEW CU-1392 138 CCCACGGGAAACAGCA NEW CU-1133 139 CAGCCCGGCCTGGCTCCTCCAT NEW CU-1134 140 CACGGAAGGTGGCCCGG NEW CU-1170 141 CTGTAGGCACCTGAAA NEW CU-1153 142 CCCCCCACTGCTAAATTTGACTGGCTT NEW CU-1191 143 GCCCGCATCCTCCACCA NEW CU-1140 144 CCCGGCCAACGCACCA NEW CU-1173 145 ATCCCACTCCTGACACCA NEW CU-1149 146 CCGGGCGGAAACACCA NEW CU-1159 147 TGTCAGTTTGTTAATTA NEW CU-1178 148 AGGGTGTGCGTGTTTTT NEW CU-1142 149 TCGATTCCCGGCCCATGCACCA NEW CU-1164 150 TGAGAGCGCTCGGTTTTT NEW CU-1148 151 TGGTGTGGTCTGTTGTTTT NEW CU-1221 152 TGTGCTCCGGAGTTACCTCGTTT NEW CU-1186 153 TCCCCGACACCTCCACCA NEW CU-1224 154 CTGTAGGCATCATCAAT NEW CU-1180 155 AACCGAGCGTCCAAGCTCTTTCCATTTT NEW CU-1155 156 TCCCCGCACCTCCACCA NEW CU-1212 157 TCCCCGGCACTTCCACCA NEW CU-1213 158 TCACCCCATAAACACCA NEW CU-1193 159 CTGTAGGCACCATCATAA NEW CU-1202 160 CCCACCAGAGTCGCCA NEW CU-1220 161 TTCCCCGACGGGGAGCCA NEW CU-1175 162 GGCGTGATTCATACCTTTT NEW CU-1194 163 GCGGGCGGACCTTTT NEW CU-1205 164 CGGCTCGAAGGACCA NEW CU-1187 165 CCCCGGCCCCGCGTA NEW CU-1206 166 CCCACCTCTGACACCA NEW CU-1210 167 CCACGAGGTCGGCCGG NEW CU-1156 168 CAGGATCGGCCCACT NEW CU-1197 169 ATGTGGTGGCTTACTTTT NEW CU-1183 170 ATCCCGGACGAGCCCA NEW CU-1570 171 ATCCCCAGCATCTCCACCA NEW CU-1146 172 AGAAAGGCCGAATTTTA NEW CU-1165 173 TGTCAGTTTTTACCCAA NEW CU-1160 174 TGTCAGTTTGAACCCAA NEW CU-1189 175 TGTAGTGTTTCTTACTTTA NEW CU-1219 176 TGGCGAAGGTCGGCCGCG NEW CU-1203 177 TGCAGGGCCGGCGGGGAGG NEW CU-1211 178 TCGGGCGGCGGGCGT NEW CU-1190 179 TCGGCTTTCCCTGCTAACTGGGCTTTTT NEW CU-1144 180 TCAGAGCGCGGGCCGACCCC NEW CU-1376 181 TCAACACCCACTCCCTC NEW CU-1138 182 TATCAATGATGCTTCTGAGA NEW CU-1384 183 TAACCCCAGGGTTGGTCA NEW CU-1154 184 GGGGTCCCCGGTAGA NEW CU-1171 185 GGGCGTGGGTGTGATGATTC NEW CU-1199 186 GGGAGGTGAGTAGGTCTG NEW CU-1226 187 GGAGACGTGGCCGAGAG NEW CU-1572 188 GCGGAATACCACGGGGA NEW CU-1151 189 GCAGGCGGGGGATTAGCTA NEW CU-1227 190 GCAGCGGAACGTCGGCGCGC NEW CU-1200 191 GACGTCACCCTCCTCA NEW CU-1152 192 CTTGGACTAACCTGGTGTA NEW CU-1158 193 CTGTAGGCCACCATCCA NEW CU-1216 194 CTGTAGGCACCACCA NEW CU-1188 195 CTGGTAGGCACCTGAAA NEW CU-1157 196 CTGATGTTGATGCATATGATGACA NEW CU-1207 197 CGGTGGAACCTGCATTGGTTT NEW CU-1181 198 CGGGGCCGGGGCTAGGGT NEW CU-1185 199 CGGGCCGCCCCCGCCCACCG NEW CU-1163 200 CGGGCCCCGGGGCTCG NEW CU-1366 201 CGGCCTATCCGGAATGCCCC NEW CU-1225 202 CGGACCTCCCTGGCCC NEW CU-1145 203 CGCGGCCAGTGTCCCCTTGTA NEW CU-1201 204 CGACACACGGCCCGTGGCGC NEW CU-1141 205 CCTCATAAATACCGG NEW CU-1172 206 CCTCACTGGGGGCTCCA NEW CU-1209 207 CCTCACCTGGAGCACCA NEW CU-1147 208 CCGTACTGGCCACCA NEW CU-1223 209 CCGCCGCCCCCCCCT NEW CU-1217 210 CCGCCCCGACCTTAGCTA NEW CU-1176 211 CCCGTCCGCTGCGCCA NEW CU-1139 212 CCCGTCCACTCCGCCA NEW CU-1166 213 CCCCGGCCCATGCACCA NEW CU-1177 214 CCCCGGCATCTCCATCA NEW CU-1214 215 CCCCAGTACCTCCACCA NEW CU-1184 216 CCCAGCGGTGCCTCCA NEW CU-1574 217 CCACGCTCTGCTACCA NEW CU-1360 218 CCACCCTGGAGCCTCCGT NEW CU-1150 219 ATGGTAGGCACCTGAAA NEW CU-1162 220 ATGGGCGGTCCTCGTT NEW CU-1179 221 ATGGCCTGGACCCCACTCCT NEW CU-1161 222 ATGGCCGCATATATTTT NEW CU-1218 223 ATCCTGTTCGTGACGCCA NEW CU-1204 224 ATCCTGCTCACAGCCCCA NEW CU-1168 225 AGCGAGGGTTCCGCCGGCC NEW CU-1195 226 ACTGGGGAGGGGGAGGAGCCTCGAGG NEW CU-1215 227 ACCCCGAGGGGACGGGCG NEW CU-1208 228 ACAGCGCTGTGTTCCCGT NEW CU-1192 229 ACAAAAAAAAAAGCCCAACCCT NEW CU-1373 230 AACTAAAACCCCTACGCA NEW CU-1196 231 AAAGGAGCCGAATCTTT NEW CU-1251 232 CCCACCCAGGGACGCCA refesqGeneIntron-annotate CU-1254 233 CCCCGGCACCTCCACCA refesqGeneIntron-annotate CU-1298 234 ATCCCGGACGAGCCCCCA refesqGeneIntron-annotate CU-1229 235 CCCACGTTGGGCGCCA refesqGeneIntron-annotate CU-1276 236 TCGATTCCCGGCCAATGCACCA refesqGeneIntron-annotate CU-1303 237 TCCCACTTCTGACACCA refesqGeneIntron-annotate CU-1270 238 TCGTAGGCACCTGAAA refesqGeneIntron-annotate CU-1242 239 TCCCCGTACGGGCCACCA refseqGeneIntron-annotate CU-1273 240 TTGACCGCTCTGACCA refesqGeneIntron-annotate CU-1328 241 CCCAGCGGGGCCTCCA refesqGeneIntron-annotate CU-1257 242 CAGGAACGGTGCACCA mRNAaLL-annotate;refesqGeneIntron-annotate CU-1241 243 AGTCCCATCTGGGTCGCCA refesqGeneIntron-annotate CU-1575 244 CCCCCCACTGCTAAATTTGACTGGA refesqGeneIntron-annotate;rnaGene-annotate CU-1274 245 GTTTGTTAATTAACCCAA refesqGeneIntron-annotate CU-1243 246 GTCCCTTCGTGGTCGCCA refesqGeneIntron-annotate CU-1284 247 CTGTAGCACCTGAAA mRNAaII-annotate;refesqGeneIntron-annotate;rnaGene-annotate CU-1300 248 TCCTCACACGGGGCACCA refesqGeneIntron-annotate CU-1278 249 TAACGGCCGCGGTACCC refesqGeneIntron-annotate CU-1264 250 GAGGGGGACCAAAAAAAA refesqGeneIntron-annotate CU-1275 251 CCCGCATTCTCCACCA refesqGeneIntron-annotate CU-1246 252 GGGGGGTAAAAAAAAA refesqGeneIntron-annotate CU-1315 253 TCCACCGCTGCCACCA refesqGeneIntron-annotate CU-1277 254 GAGCCATGATGATACCACTGAGC refesqGenel ntron-an notate CU-1288 255 CGTCCATGATGTTCCGCAA mRNAaII-annotate;snoRNA-annotate;piRNA-annotate; wgRNA-annotate;refseqGeneIntron-annotate CU-1234 256 CATCCTCTGCTACCA mRNAaII-annotate;refseqGeneIntron-annotate; exEID-annotate CU-1345 257 AGAACACTACGAGCCACA mRNA-annotate;refseqGeneIntron-annotate CU-1352 258 ACCCCACTTCTGGTACCA refesqGeneIntron-annotate CU-1323 259 TGTATTGTGAGACATTC mRNAaII-annotate;refesqGeneIntron-annotate; wgRNA-annotate;rnaGene-annotate CU-1324 260 TCTCGGTGGAACCTCCA refesqGeneIntron-annotate CU-1302 261 TCCCCGGCACCTCCAA refesqGeneIntron-annotate CU-1269 262 TACCGAGCCTGGTGATAGC refesqGeneIntron-annotate CU-1281 263 GCAGCGCCAGCCTCCCGCCCTAC refesqGeneIntron-annotate CU-1292 264 CCGCCTGGGGAGTAC refesqGeneIntron-annotate CU-1339 265 ATCCCCAGCACCTCCACCA refesqGeneIntron-annotate CU-1293 266 AGCAGTGATGTCCTGAAAATTCTGAAG refesqGeneIntron-annotate CU-1307 267 ACCCCACTATGCTTAGCCCT mRNA-annotate;refesqGeneIntron-annotate CU-1294 268 AAAGGACCTGGCGGTGCTTC mRNA-annotate;refesqGeneIntron-annotate CU-1325 269 TTGCCACACTGCAACACCTT refesqGeneIntron-annotate CU-1333 270 TTCCTTGGATGTCTGAGTGAC refesqGeneIntron-annotate CU-1310 271 TTAACCACCAAGATCGCTGATGCAC refseqGeneIntron-annotate CU-1299 272 TGTTCGCCGACCGTTGA refseqGeneIntron-annotate CU-1265 273 TGGGGTCTGGGAGGGA refseqGeneIntron-annotate CU-1322 274 TGGGAGAGCAGGGTATTGT refseqGeneIntron-annotate CU-1279 275 TGCAGATGATGTAAAAGA snoRNA-annotate;refseqGeneIntron-annotate;wgRNA-annotate; rnaGene-annotate CU-1267 276 TCGCTATGATGATGGATTCCAAAA mRNAaII-annotate;refesqGeneIntron-annotate;rnaGene-annotate CU-1308 277 TCCGAAAGGCCTCCCGCACCG refesqGeneIntron-annotate CU-1331 278 TCCCGCACCTCCACCA refesqGeneIntron-annotate CU-1297 279 TAGATGAATAGGTAAAGAG refesqGeneIntron-annotate CU-1235 280 GTGTATGATGACCTCATGTAGCCTGAAC refesqGeneIntron-annotate CU-1253 281 GTGAAGCGTTCCATATTTTT mRNAaII-annotate;refesqGeneIntron-annotate;rnaGene-annotate CU-1348 282 GGGGGGGGGTTTGGAA refesqGeneIntron-annotate CU-1337 283 GGGGGGAGGGAAGGCAA refesqGeneIntron-annotate CU-1316 284 GGGGGCTGGGCTGGGTA refesqGeneIntron-annotate CU-1343 285 GGGGCCGCCGCCTGTGT refesqGeneIntron-annotate CU-1326 286 GGGAGTCCGCGGCGAGC refesqGeneIntron-annotate CU-1329 287 GGGACCTGGGGACCA refesqGeneIntron-annotate CU-1286 288 GGCTTGGTCTAGGGGTA refesqGeneIntron-annotate CU-1332 289 GGCTGGGACCCTGGACAC refesqGeneIntron-annotate CU-1262 290 GGCGACCTGCGACTCCTT refesqGeneIntron-annotate CU-1236 291 GGAGGGGGGAAACAAA refesqGeneIntron-annotate CU-1317 292 GGAGGGGGGAAAAAAAAAA computGene-annotate;refesqGeneIntron-annotate CU-1327 293 GGAAGACCTGCACCACTGTC mRNAaII-annotate;computGene-annotate;refesqGeneIntron- annotate;exeID-annotate CU-1239 294 GCGGGTGTCAGGCCT refesqGeneIntron-annotate CU-1266 295 GCCGGGCGTGGTGGTCTG refesqGeneIntron-annotate CU-1261 296 GCCGCCGAGACCCCAGGACCC refesqGeneIntron-annotate CU-1260 297 GCAGCCGTGCTTTTA refesqGeneIntron-annotate CU-1259 298 GCAAATGATGCCCTCTGATC refesqGeneIntron-annotate CU-1349 299 GAGGGGGGTCAAAAAAA refesqGeneIntron-annotate CU-1272 300 CTTGATGATGAGCAGGATCTGAGT refesqGeneIntron-annotate CU-1341 301 CTGTAGGCACTGAAA refesqGeneIntron-annotate CU-1231 302 CTGTAGGCACCATTAA refseqGeneIntron-annotate CU-1313 303 CTGCTTAAGTCCTGACCAG refesqGeneIntron-annotate CU-1296 304 CTGAGCACCTTTCCCTTCC refesqGeneIntron-annotate CU-1291 305 CTAGCCCCAAACCCA piRNA-annotate;refesqGeneIntron-annotate CU-1245 306 CGGTCACACGATTAACCCA mRNA-annotate;refesqGeneIntron-annotate CU-1338 307 CGGGGGGAGGAAAAAA refesqGeneIntron-annotate CU-1268 308 CGGGGGGAAAAAAAAA refesqGeneIntron-annotate CU-1290 309 CGGGGCCGCACGCGC refesqGeneIntron-annotate CU-1319 310 CGGGAGTGGGGTGGCGCCCAG refesqGeneIntron-annotate CU-1318 311 CGGGAGCCCCGGGTT refesqGeneIntron-annotate CU-1569 312 CGGACCTGATAAATTCCCAC refesqGeneIntron-annotate CU-1320 313 CGCGGCTCTTGCGGT refesqGeneIntron-annotate CU-1249 314 CGCCTGAGTCAGAAC refesqGeneIntron-annotate CU-1240 315 CGCCGCCGCCCCCCCC mRNAaII-annotate;refesqGeneIntron-annotate;exEID-annotate CU-1351 316 CCTTCCTTGGATGTCTGAGTGAG mRNAaII-annotate;refesqGeneIntron-annotate;wgRNA-annotate; rnaGene-annotate CU-1354 317 CCTCGCTGGGGCCTCCA refesqGeneIntron-annotate CU-1233 318 CCTCACAGGGACGCCA refesqGeneIntron-annotate CU-1289 319 CCTAGGAGTGCGACAATT mRNAaII-annotate;refesqGeneIntron-annotate;wgRNA-annotate; rnaGene-annotate CU-1283 320 CCGCTCTGAGACCTA refesqGeneIntron-annotate CU-1228 321 CCGCCCGTCACCCTCCTCAAGTA mRNA-annotate;refesqGeneIntron-annotate CU-1344 322 CCCGGGCGGCACACCA refesqGeneIntron-annotate CU-1271 323 CCCGCGGGCTTGCTGGGCGTCCC refesqGeneIntron-annotate CU-1321 324 CCCCTGCGATTTCCCCA refesqGeneIntron-annotate;rnaGene-annotate CU-1285 325 CCCCGGCATCTCCACTA refesqGeneIntron-annotate CU-1571 326 CCCCAGTGAGTGCCCTCTTCC refesqGeneIntron-annotate CU-1353 327 CCCAGAGACGCCGTCCTCGA refesqGeneIntron-annotate CU-1355 328 CCCACCGAGGATGCCA refesqGeneIntron-annotate CU-1238 329 CCATCACTACCCACCA refesqGeneIntron-annotate CU-1347 330 CCACTCCAGCCTAGCCCC refesqGeneIntron-annotate CU-1295 331 CAGTACAGGCACACCTC refesqGeneIntron-annotate CU-1256 332 CACGTCGGGGTCCCCA refesqGeneIntron-annotate CU-1250 333 CACGATTAACCCAAGTC mRNA-an notate; refesqGeneIntron-annotate CU-1305 334 CACCACACCCGGGCCA refseqGeneIntron-annotate CU-1287 335 CAACACAGGCATGCT refesqGeneIntron-annotate CU-1314 336 ATAGGGTTTACGACCTCGATGTTGGATCA refesqGeneIntron-annotate CU-1311 337 ATACCATGATGAACAATAGCTGAGA refesqGeneIntron-annotate CU-1282 338 AGGGTTCAGCTGTCTC refesqGeneIntron-annotate CU-1350 339 AGGCTGTGATGGACCTGGCTGAGCCTG refesqGeneIntron-annotate CU-1252 340 AGAGAGTAGGGGGAGGT refesqGeneIntron-annotate CU-1334 341 ACTGTCCCTGTCTACTA refesqGeneIntron-annotate CU-1340 342 ACCGCATCTGGCCTATTTTT refesqGeneIntron-annotate CU-1342 343 ACCAGACCTCCTGTGCGAAG refesqGeneIntron-annotate CU-1304 344 ACAGCCCGGATCCCAGCCCACTTA refesqGeneIntron-annotate CU-1230 345 ACACTGAGCCACAACCCA refesqGeneIntron-annotate CU-1312 346 AAGGGCTTGGCTTAATTA refesqGeneIntron-annotate CU-1255 347 AACCCGGAAGGCGGAGGTTGCGG computGene-annotate;refesqGeneIntron-annotate CU-1336 348 AACCCCACACCAACC refesqGeneIntron-annotate CU-1346 349 AACAAGCTTCTTTGACGTCCCATCCAC refesqGeneIntron-annotate CU-1369 350 TCCCCGGCATCTCCACCA computGene-annotate CU-1370 351 CTGATTGCTCCTGTCTGATT mRNAaII-annotate;exEID-annotate;rnaGene-annotate CU-1371 352 TCTAGAGGAGCCTGTTCTGTA mRNA-annotate CU-1381 353 TCGATTCCCGGTCAGGGAACCA repeats-annotate CU-1380 354 ATAGGTTTGGTCCTAGCCTTTCT piRNA-annotate CU-1363 355 CGTTCGCGCTTTCCCCTG rnaGene-annotate CU-1396 356 TAAGTGTTTGTGGGTTA rnaGene-annotate CU-1361 357 GGCGGCGGGAGACCCA computGene-annotate CU-1359 358 CCCCGGCAGGTTTGA rnaGene-annotate CU-1573 359 TGCCGTGATCGTATAGTGGTTA piRNA-an notate CU-1169 360 TCAGACTACTCTCCTCCGCCCATT mRNAaII-annotate CU-1167 361 GGACACAGAGGCTTCG mRNAaII-annotate CU-1395 362 CTGACAGCCGGGGTTTTGGA computGene-annotate CU-1365 363 CGGCGGGGCCTGGAGTCTG mRNAaII-annotate;computGene-annotate;exEID-annotate CU-1375 364 CCTGGCTCGCTGCGCCA omputGene-annotate CU-1182 365 CCGCCCCACCCCGCGCGC mRNAaII-annotate;exEID-annotate CU-1174 366 CCCGAACGCTGCCAACCC exEID-annotate CU-1385 367 AGACCCGCGGGCGCTCTCCAGTC rnaGene-annotate CU-1524 368 CCCCCACAACCGCGCTTGACTAGC mRNAaII-annotate;yRNA-eliminate;rnaGene-annotate CU-1453 369 CCCTGCTCGCTGCGCCA refesqGeneExon-eliminate CU-1477 370 CTCCCACTGCTTCACTTGACTAGC yRNA-eliminate;refesqGeneIntron-annotate;rnaGene-annotate CU-1466 371 CCCATCCTCGTCGCCA refesqGeneExon-eliminate CU-1222 372 TCACGTCGGGGTCACCA Morozov-eliminate CU-1388 373 TCCCTGGTGGTCTAGTGGTTAGGATTCG tRNAcomputational-annotate;rnaGene-annotate;HStRNA- eliminate;piRNA-annotate CU-1428 374 GGTAGCGTGGCCGAG RNAcomputational-annotate;tRNA-eliminate;HStRNA-eliminate; rnaGene-annotate CU-1488 375 TCCTGCCGCGGTCGCCA refesqGeneExon-eliminate CU-1557 376 GGAGAGAACGCGGTCTGAGTGGT snoRNA-eliminate;wgRNA-annotate;rnaGene-annotate CU-1379 377 TCGGGTGCGAGAGGTCCCGGGT tRNAcomputational-annotate;HStRNA-eliminate; rnaGene-annotate CU-1542 378 GGCTGGTCCGATGGTAGTGGGTT mRNAaII-annotate;yRNA-eliminate;refesqGeneIntron-annotate; rnaGene-annotate CU-1550 379 CGGAAGCGTGCTGGGCCC tRNAcomputational-annotate;tRNA-eliminate; rnaGene-annotate; HStRNAeliminate;piRNA-annotate CU-1232 380 CCCGGGCGGCGCACCA Morozov-eliminate;refesqGeneIntron-annotate CU-1513 381 GCGGGTGATGCGAACTGGAGTCTGAGC computGene-annotate;snoRNA-annotate;snoRNA-eliminate; wgRNA-annotate; rnaGene-annotate CU-1368 382 GACGAGGTGGCCGAGTGG tRNAcomputational-annotate;rnaGene-annotate; HStRNA-eliminate;piRNA-annotate CU-1474 383 GGGGGTGTAGCTCAG RNAcomputational-annotate;tRNA-eliminate;rnaGene-annotate; HStRNA-eliminate;piRNA-annotate CU-1470 384 CTCCTGGCTGGCTCGCCA mRNAaII-annotate;computGene-annotate;refseqGeneExon-eliminate; exEID-annotate CU-1471 385 CGGGAGGCCCGGGTT rnaGene-annotate;tRNAcomputational-annotate;piRNA-annotate; tRNAeliminate;refesqGeneIntron-annotate;mRNA-annotate; HStRNA-eliminate CU-1538 386 GGCTGGTCCGAGTGCAGTGGTGTTTA yRNA-eliminate;refesqGeneIntron-annotate;rnaGene-annotate CU-1486 387 CTGCTGTGATGACATTC computGene-annotate;snoRNA-annotate;snoRNA-eliminate; wgRNA-annotate;rnaGene-annotate CU-1386 388 GTCACGCGGGAGACC RNAcomputational-annotate;mRNAaII-annotate; rnaGene-annotate;HStRNA-eliminate;piRNA-annotate CU-1382 389 CCTCGTTAGTATAGTGGTGAGTATCCC tRNAcomputational-annotate;rnaGene-annotate; HStRNA-eliminate;piRNA-annotate CU-1433 390 GGCCGGTTAGCTCAG mRNAaII-annotate;exE ID-annotate;rnaGene-annotate; tRNAcomputational-annotate;piRNA-annotate;refseqGeneIntron- annotate;refseqGeneExon-eliminate;HStRNA-eliminate CU-1403 391 GCATTGGTGGTTCAGTGGTAGA rnaGene-annotate;tRNAcomputational-annotate;piRNA- annotate;tRNA-eliminate;refesqGeneIntron-annotate; HStRNA-eliminate CU-1362 392 CTGTCACGCGGGAGA RNAcomputational-annotate;mRNAaII-annotate; rnaGene-annotate;HStRNA-eliminate;piRNA-annotate CU-1490 393 CTACGGGGATGATTTT mRNAaII-annotate;snoRNA-annotate;snoRNA-eliminate; wgRNA-annotate;rnaGene-annotate CU-1469 394 CCAGGGGCTGAGGGCA snoRNA-eliminate;refesqGeneIntron-annotate; wgRNA-annotate CU-1457 395 TCTCACTACTGCACTTGACTA mRNAaII-annotate;yRNA-eliminate;refseqGeneIntron-annotate; exEID-annotate;rnaGene-annotate CU-1440 396 GGTTATCACGTTCGCC RNAcomputational-annotate;tRNA-eliminate;rnaGene- annotate;HStRNA-eliminate;piRNA-annotate CU-1528 397 AGGGGTATGATTCTCGCT tRNAcomputational-annotate;tRNA-eliminate;HStrNA- eliminate;rnaGene-annotate CU-1545 398 CCACGAGGAAGAGAGGTAGC snoRNA-eliminate;wgRNA-annotate;snoRNA-annotate CU-1244 399 GTCAGGATGGCCGAGCGGTCT RNAcomputational-annotate;rnaGene-annotate;HStRNA- eliminate;refseqGeneIntron-annotate CU-1390 400 GGGGATGTAGCTCAG tRNAcomputational-annotate;rnaGene-annotate;HStRNA- eliminate;piRNA-annotate CU-1377 401 GCAGCGATGGCCGAG tRNAcomputational-annotate;HStRNA-eliminate;rnaGene- annotate

TABLE 1B List of known and newly identified mature miRINAs including information on frequencies. Corrected Counts Frequencies SEQ Memory Centroblasts Ramos Memory Centroblasts Ramos Mature miRNA sequence ID NO. Na{umlaut over ()}ive (N) (M) (CB) (RA) Naïve (N) (M) (CB) TGTAGTGTTTCCTACTTTATGGA 1 1329 592 635 391 38.5 19.83 24.93 16.02 TAGCTTATCAGACTGATGTTGA 2 196 353 144 13 5.68 11 .83 5.65 0.53 TAAAGTGCTTATAGTGCAGGTAG 3 54 19 49.82 257.89 1.56 0.64 1 .96 10.57 TAGCAGCACATCATGGTTTACA 4 38 61 176.84 105 1.1 2.04 6.94 4.3 TAGCAGCACGTAAATATTGGCG 5 131 97 53 35 3.79 3.25 2.08 1.43 TGAGGTAGTAGGTTGTATAGTT 6 62.84 78.99 92.19 63.25 1.82 2.65 3.62 2.59 TATTGCACTTGTCCCGGCCTGT 7 17 21 46 207 0.49 0.7 1 .81 8.48 TCCCACCGCTGCCACCA 8 68 97 25 28 1.97 3.25 0.98 1.15 TGAGGTAGTAGATTGTATAGTT 9 41.28 44 64 51.38 1.2 1.47 2.51 2.11 TAGCACCATCTGAAATCGGTTA 10 78 60 42 22 2.26 2.01 1.65 0.9 TAGCAGCACATAATGGTTTGT 11 90 39 32.16 8 2.61 1.31 1.26 0.33 CCCATAAAGTAGAAAGCACTA 12 88 53 7 10 2.55 1.78 0.27 0.41 TGAGGTAGTAGTTTGTACAGTT 13 41.28 47 30.77 21.16 1.2 1.57 1.21 0.87 TGAGGTAGTAGTTTGTGCTGTT 14 23 24 32 42 0.67 0.8 1 .26 1.72 TAGCACCATTTGAAATCGGTTA 15 44 41 16 1 1 .27 1.37 0.63 0.04 TGTAAACATCCTACACTCTCAGC 16 27 25 26 20 0.78 0.84 1.02 0.82 CAAAGTGCTTACAGTGCAGGTAG 17 9 6 10.18 65.04 0.26 0.2 0.4 2.67 CATTGCACTTGTCTCGGTCTGA 18 11 9 34 39 0.32 0.3 1.33 1.6 CAACGGAATCCCAAAAGCAGCTG 19 17 21 36 18 0.49 0.7 1.41 0.74 TGTGCAAATCCATGCAAAACTGA 20 0 1 25 65 0 0.03 0.98 2.66 TACCACAGGGTAGAACCACGGA 21 31 22 17 21 0.9 0.74 0.67 0.86 TGTAAACATCCTACACTCAGCT 22 31 11 27 16 0.9 0.37 1.06 0.66 TGAGGTAGTAGGTTGTGTGGTT 23 19.48 19 29 5.08 0.56 0.64 1.14 0.21 TAGCACCATTTGAAATCAGTGTT 24 22 14 12 4 0.64 0.47 0.47 0.16 TAAAGTGCTGACAGTGCAGAT 25 7 6 13 26 0.2 0.2 0.51 1.07 TCCCTGTCCTCCAGGAGCTC 26 6 3 3 32 0.17 0.1 0.12 1.31 TTCAAGTAATCCAGGATAGGCT 27 2 8 13 16 0.06 0.27 0.51 0.66 CAAAGTGCTGTTCGTGCAGGTAG 28 9 2 13 14 0.26 0.07 0.51 0.57 TGTCAGTTTGTCAAATACCCCA 29 25 10 1 0 0.72 0.34 0.04 0 TGAGAACTGAATTCCATGGGTT 30 4 7 21 4 0.12 0.23 0.82 0.16 TCTCCCAACCCTTGTACCAGT 31 12 18 2 0 0.35 0.6 0.08 0 TCCCTGAGACCCTAACTTGTGA 32 0 1 28 2 0 0.03 1.1 0.08 TCTCACACAGAAATCGCACCCGTC 33 10 8 8 3 0.29 0.27 0.31 0.12 GTCCCTGTTCGGGCGCCA 34 12 10 6 1 0.35 0.34 0.24 0.04 TGTGCAAATCTATGCAAAACTGA 35 0 0 9 19 0 0 0.35 0.78 TGTAAACATCCCCGACTGGAAG 36 7 3 14 3 0.2 0.1 0.55 0.12 AGCTACATTGTCTGCTGGGTT 37 17 6 4 0 0.49 0.2 0.16 0 AGAGGTAGTAGGTTGCATAGTT 38 2 4 10 10 0.06 0.13 0.39 0.41 CCGCACTGTGGGTACTTGCT 39 8 6 2 8 0.23 0.2 0.08 0.33 AGCAGCATTGTACAGGGCTATGA 40 1 1 10 11 0.03 0.03 0.39 0.45 AACTGGCCCTCAAAGTCCCGCT 41 0 0 2 21 0 0 0.08 0.86 GCCCCTGGGCCTATCCTAGAA 42 1 0 10 10 0.03 0 0.39 0.41 AGCTGGTGTTGTGAATCAGGCCGT 43 0 0 15 5 0 0 0.59 0.2 TGAGGGGCAGAGAGCGAGACTT 44 5 1 7 4 0.14 0.03 0.27 0.16 AGCTACATCTGGCTACTGGGTCT 45 6 6 5 0 0.17 0.2 0.2 0 GTGGGGGAGAGGCTGTA 46 2 6 3 5 0.06 0.2 0.12 0.2 CTATACGACCTGCTGCCTTTC 47 6 3 4 1 0.17 0.1 0.16 0.04 TTAATGCTAATCGTGATAGGGGT 48 3 4 5 1 0.09 0.13 0.2 0.04 AGGGGGAAAGTTCTATAGTC 49 0 2 0 11 0 0.07 0 0.45 ACAGTAGTCTGCACATTGGTT 50 0 0 13 0 0 0 0.51 0 AACATTCAACGCTGTCGGTGAGTT 51 0 0 7 6 0 0 0.27 0.25 TGGAAGACTAGTGATTTTGTTGT 52 1 1 1 8 0.03 0.03 0.04 0.33 TAATGCCCCTAAAAATCCTTAT 53 0 0 6 4 0 0 0.24 0.16 TAGCAGCACAGAAATATTGGCA 54 4 0 5 0 0.12 0 0.2 0 TGAGGTAGTAGGTTGTAT 55 0.11 0.01 0.01 0.13 0 0 0 0.01 TCCTGTACTGAGCTGCCCCGAG 56 0 0 7 1 0 0 0.27 0.04 TCCCTGAGACCCTTTAACCTGTG 57 0 0 8 0 0 0 0.31 0 ATCACATTGCCAGGGATTTCCA 58 0 0.5 7 0 0 0.02 0.27 0 TCACAGTGAACCGGTCTCTTT 59 1 0 0 6 0.03 0 0 0.25 CACTAGATTGTGAGCTCCTGGA 60 2 0 4 1 0.06 0 0.16 0.04 CAACAAATCACAGTCTGCCAT 61 3 0 1 3 0.09 0 0.04 0.12 CAAAGTGCTTATAGTGCAGGTAG 62 0 1 1 0.08 0 0.03 0.04 0 AGGTTGGGATCGGTTGCAATGCT 63 0 0 0 7 0 0 0 0.29 ACATTCATTGCTGTCGGTGGGTT 64 0 0 1 6 0 0 0.04 0.25 TCCCCCAGGTGTGATTCTGATT 65 4 1 0 1 0.12 0.03 0 0.04 CCCAGTGTTCAGACTACCTGTTC 66 0 0 6 0 0 0 0.24 0 ACCAATATTACTGTGCTGCTT 67 1 1 2 2 0.03 0.03 0.08 0.08 TGTAAACATCCTTGACTGGAAGCT 68 2 0 3 0 0.06 0 0.12 0 TAAGGTGCATCTAGTGCAGATA 69 0 0 1 4 0 0 0.04 0.16 ATCACATTGCCAGGGATTACCA 70 0 0.5 3 1 0 0.02 0.12 0.04 ACTGCCCTAAGTGCTCCTTCTG 71 0 0 0 5 0 0 0 0.2 TGTAAACATCCTCGACTGGA 72 1 0 3 0 0.03 0 0.12 0 TACAGTACTGTGATAACTGAAG 73 1 0 0 3 0.03 0 0 0.12 CTAGACTGAAGCTCCTTGAGG 74 2 1 1 0 0.06 0.03 0.04 0 TGGCAGTGTCTTAGCTGGTTGTT 75 0 1 2 0 0 0.03 0.08 0 TGAGGTAGTAAGTTGTATTGTT 76 0 1 1 1 0 0.03 0.04 0.04 TGAGAACTGAATTCCATAGGCTGT 77 1 0 2 0 0.03 0 0.08 0 TCGAGGAGCTCACAGTCTAGTA 78 1 0 1 1 0.03 0 0.04 0.04 AGCTCGGTCTGAGGCCCCTCAG 79 0 0 2 1 0 0 0.08 0.04 ACTGCAGTGAAGGCACTTGTAG 80 0 0 0 3 0 0 0 0.12 ACCATCGACCGTTGATTGTA 81 0 1 0 2 0 0.03 0 0.08 TTCACCACCTTCTCCACCCAG 82 0 0 0 2 0 0 0 0.08 TTCACAGTGGCTAAGTTCTG 83 0 0 2 0 0 0 0.08 0 TTCAAGTAATTCAGGATAGGTT 84 0 0 1 1 0 0 0.04 0.04 TGGGTTTACGTTGGGAGAACT 85 0 0 0 2 0 0 0 0.08 TGGGTTGAGAGGGCGA 86 1 0 1 0 0.03 0 0.04 0 TGAGGTAGGAGGTTGTATAGTT 87 0 0 1.02 0 0 0 0.04 0 TGACCGATTTCTCCTGGTGTT 88 2 0 0 0 0.06 0 0 0 TATTGCACTCGTCCCGGCC 89 0 0 1 1 0 0 0.04 0.04 GGGGTGCTATCTGTGATTGA 90 2 0 0 0 0.06 0 0 0 GCATGGGTGGTTCAGTGGTAGA 91 0 0 2 0 0 0 0.08 0 CTGGCCCTCTCTGCCCTT 92 0 0 1 1 0 0 0.04 0.04 CTGACCTATGAATTGACAGC 93 0 0 0 2 0 0 0 0.08 CTCCTGACTCCAGGTCCTGTG 94 0 0 0 2 0 0 0 0.08 CGTCAACACTTGCTGGTT 95 0 0 1 1 0 0 0.04 0.04 CGAATCATTATTTGCTGCTCT 96 0 0 1 1 0 0 0.04 0.04 CATCGGGAATGTCGTGTCCGCC 97 0 2 0 0 0 0.07 0 0 CAGTGGTTTTACCCTATGGTA 98 0 0 1 1 0 0 0.04 0.04 CAGTGCAATGATGAAAGGGCAT 99 0 0 2 0 0 0 0.08 0 CAGCAGCACACTGTGGTTTGT 100 0 0 2 0 0 0 0.08 0 CACGCTCATGCACACACCCAC 101 0 0 2 0 0 0 0.08 0 AAGGAGCTCACAGTCTATTGAG 102 0 0 2 0 0 0 0.08 0 TTGGTCCCCTTCAACCAGCTGT 103 0 0 1 0 0 0 0.04 0 TTCACAGTGGCTAAGTTCCGA 104 0 1 0 0 0 0.03 0 0 TTATCAGAATCTCCAGGGGTAA 105 1 0 0 0 0.03 0 0 0 TGGAGAGAAAGGCAGTTCCTGAT 106 0 0 1 0 0 0 0.04 0 TGAGACCTCTGGGTTCTGAGCT 107 0 0 0 1 0 0 0 0.04 TCTTTGGTTATCTAGCTGTATGA 108 0 0 0 1 0 0 0 0.04 TCTAGTAAGAGTGGCAGTCGA 109 0 0 0 1 0 0 0 0.04 TATTGCACATTACTAAGTTGA 110 1 0 0 0 0.03 0 0 0 TAAGGCACGCGGTGAATGCCA 111 1 0 0 0 0.03 0 0 0 TAACACTGTCTGGTAACGATGTT 112 0 0 0 1 0 0 0 0.04 GTGAAATGTTTAGGACCACTAG 113 0 0 1 0 0 0 0.04 0 GCAGTCCATGGGCATATACACA 114 0 0 1 0 0 0 0.04 0 GAGCTTATTCATAAAAGTGCAG 115 0 0 1 0 0 0 0.04 0 CTGCCCTGGCCCGAGGGACCG 116 0 0 0 1 0 0 0 0.04 CTATACAACCTACTGCCTTC 117 0 0 1 0 0 0 0.04 0 CGGGGTTTTGAGGGCGAGATGA 118 0 0 0 1 0 0 0 0.04 CCAGTGGGGCTGCTGTTATCTG 119 0 0 1 0 0 0 0.04 0 CCAGTATTAACTGTGCTGCTGA 120 0 0 0 1 0 0 0 0.04 CACCCGTAGAACCGACCTTGCG 121 0 0 1 0 0 0 0.04 0 CAAGCTCGTGTCTGTGGGTCCG 122 0 0 1 0 0 0 0.04 0 CAACACCAGTCGATGGGCTGTA 123 0 0 0 1 0 0 0 0.04 AGGCGGAGACTTGGGCAATT 124 0 0 0 1 0 0 0 0.04 ACTGCATTATGAGCACTTAAAGT 125 0 0 0 1 0 0 0 0.04 ACTGATTTCTTTTGGTGTTCA 126 0 0 0 1 0 0 0 0.04 ACTCGGCGTGGCGTCGGTCGTGG 127 0 0 0 1 0 0 0 0.04 ACCACTGACCGTTGACTGTAC 128 0 1 0 0 0 0.03 0 0 AACTGGCCTACAAAGTCCCAGT 129 0 0 1 0 0 0 0.04 0 TGTCTGAGCGTCGCT 130 0 0 4 0 0 0 0.16 0 GCCGGGTACTTTCGTATTTT 131 3 3 0 34 0.09 0.1 0 1.39 GCTAAGGAAGTCCTGTGCTCAGT 132 0 0 1 19 0 0 0.04 0.78 TTT CCCGGGTTTCGGCACCA 133 0 3 0 1 0 0.1 0 0.04 TCGGGCGGGAGTGGTGGCTTT 134 0 0 0 1 0 0 0 0.04 TAGAGGCACCGCCTGCCCA 135 0 1 0 0 0 0.03 0 0 CGGGGCGCGGCCTCGCTG 136 1 0 0 0 0.03 0 0 0 CCCACGGGGGTCTCCGGGCGAG 137 1 0 0 0 0.03 0 0 0 CCCACGGGAAACAGCA 138 0 1 0 0 0 0.03 0 0 CAGCCCGGCCTGGCTCCTCCAT 139 0 1 0 0 0 0.03 0 0 CACGGAAGGTGGCCCGG 140 0 1 0 0 0 0.03 0 0 CTGTAGGCACCTGAAA 141 1 0 0 148.06 0.03 0 0 6.07 CCCCCCACTGCTAAATTTGACTGG 142 18 8 61 22 0.52 0.27 2.39 0.9 CTT GCCCGCATCCTCCACCA 143 38 61 2 4 1.1 2.04 0.08 0.16 CCCGGCCAACGCACCA 144 28.76 36.71 4.12 4 0.83 1.23 0.16 0.16 ATCCCACTCCTGACACCA 145 7 13 11.31 3 0.2 0.44 0.44 0.12 CCGGGCGGAAACACCA 146 9 9 6 0 0.26 0.3 0.24 0 TGTCAGTTTGTTAATTA 147 1 1 3 16 0.03 0.03 0.12 0.66 AGGGTGTGCGTGTTTTT 148 0 0 0 20 0 0 0 0.82 TCGATTCCCGGCCCATGCACCA 149 1 2 10 4 0.03 0.07 0.39 0.16 GAGAGCGCTCGGTTTTT 150 0 0 1 9 0 0 0.04 0.37 TGGTGTGGTCTGTTGTTTT 151 0 0 0 9 0 0 0 0.37 TGTGCTCCGGAGTTACCTCGTTT 152 0 0 0 8 0 0 0 0.33 TCCCCGACACCTCCACCA 153 2 2 2 1 0.06 0.07 0.08 0.04 CTGTAGGCATCATCAAT 154 0 0 1 3.57 0 0 0.04 0.15 CCGAGCGTCCAAGCTCTTTCCATTT 155 0 0 0 5 0 0 0 0.2 TT TCCCCGCACCTCCACCA 156 0 2 1 1 0 0.07 0.04 0.04 TCCCCGGCACTTCCACCA 157 0 3 0 0 0 0.1 0 0 TCACCCCATAAACACCA 158 2 1 0 0 0.06 0.03 0 0 CTGTAGGCACCATCATAA 159 0 0 0 2.43 0 0 0 0.1 CCCACCAGAGTCGCCA 160 1 2 0 0 0.03 0.07 0 0 TTCCCCGACGGGGAGCCA 161 1 0 0 1 0.03 0 0 0.04 GGCGTGATTCATACCTTTT 162 0 0 0 2 0 0 0 0.08 GCGGGCGGACCTTTT 163 1 1 0 0 0.03 0.03 0 0 CGGCTCGAAGGACCA 164 0 2 0 0 0 0.07 0 0 CCCCGGCCCCGCGTA 165 0 2 0 0 0 0.07 0 0 CCCACCTCTGACACCA 166 0 1 1 0 0 0.03 0.04 0 CCACGAGGTCGGCCGG 167 0 2 0 0 0 0.07 0 0 CAGGATCGGCCCACT 168 2 0 0 0 0.06 0 0 0 ATGTGGTGGCTTACTTTT 169 0 0 0 2 0 0 0 0.08 ATCCCGGACGAGCCCA 170 0 2 0 0 0 0.07 0 0 ATCCCCAGCATCTCCACCA 171 0 0 2 0 0 0 0.08 0 AGAAAGGCCGAATTTTA 172 0 0 1 1 0 0 0.04 0.04 TGTCAGTTTTTACCCAA 173 0 0 0 1 0 0 0 0.04 TGTCAGTTTGAACCCAA 174 0 0 0 1 0 0 0 0.04 TGTAGTGTTTCTTACTTTA 175 1 0 0 0 0.03 0 0 0 TGGCGAAGGTCGGCCGCG 176 0 1 0 0 0 0.03 0 0 TGCAGGGCCGGCGGGGAGG 177 0 1 0 0 0 0.03 0 0 TCGGGCGGCGGGCGT 178 1 0 0 0 0.03 0 0 0 TCGGCTTTCCCTGCTAACTGGGCT 179 0 0 0 1 0 0 0 0.04 TTTT TCAGAGCGCGGGCCGACCCC 180 1 0 0 0 0.03 0 0 0 TCAACACCCACTCCCTC 181 0 1 0 0 0 0.03 0 0 TATCAATGATGCTTCTGAGA 182 0 0 0 1 0 0 0 0.04 TAACCCCAGGGTTGGTCA 183 0 1 0 0 0 0.03 0 0 GGGGTCCCCGGTAGA 184 0 1 0 0 0 0.03 0 0 GGGCGTGGGTGTGATGATTC 185 0 0 0 1 0 0 0 0.04 GGGAGGTGAGTAGGTCTG 186 0 1 0 0 0 0.03 0 0 GGAGACGTGGCCGAGAG 187 0 1 0 0 0 0.03 0 0 GCGGAATACCACGGGGA 188 0 1 0 0 0 0.03 0 0 GCAGGCGGGGGATTAGCTA 189 1 0 0 0 0.03 0 0 0 GCAGCGGAACGTCGGCGCGC 190 0 1 0 0 0 0.03 0 0 GACGTCACCCTCCTCA 191 0 1 0 0 0 0.03 0 0 CTTGGACTAACCTGGTGTA 192 0 0 1 0 0 0 0.04 0 CTGTAGGCCACCATCCA 193 0 0 0 1 0 0 0 0.04 CTGTAGGCACCACCA 194 1 0 0 0 0.03 0 0 0 CTGGTAGGCACCTGAAA 195 0 0 0 1 0 0 0 0.04 CTGATGTTGATGCATATGATGACA 196 0 0 0 1 0 0 0 0.04 CGGTGGAACCTGCATTGGTTT 197 0 0 1 0 0 0 0.04 0 CGGGGCCGGGGCTAGGGT 198 0 1 0 0 0 0.03 0 0 CGGGCCGCCCCCGCCCACCG 199 0 1 0 0 0 0.03 0 0 CGGGCCCCGGGGCTCG 200 0 1 0 0 0 0.03 0 0 CGGCCTATCCGGAATGCCCC 201 0 1 0 0 0 0.03 0 0 CGGACCTCCCTGGCCC 202 1 0 0 0 0.03 0 0 0 CGCGGCCAGTGTCCCCTTGTA 203 1 0 0 0 0.03 0 0 0 CGACACACGGCCCGTGGCGC 204 1 0 0 0 0.03 0 0 0 CCTCATAAATACCGG 205 0 1 0 0 0 0.03 0 0 CCTCACTGGGGGCTCCA 206 1 0 0 0 0.03 0 0 0 CCTCACCTGGAGCACCA 207 0 0 1 0 0 0 0.04 0 CCGTACTGGCCACCA 208 0 1 0 0 0 0.03 0 0 CCGCCGCCCCCCCCT 209 0 1 0 0 0 0.03 0 0 CCGCCCCGACCTTAGCTA 210 0 1 0 0 0 0.03 0 0 CCCGTCCGCTGCGCCA 211 0 1 0 0 0 0.03 0 0 CCCGTCCACTCCGCCA 212 0 1 0 0 0 0.03 0 0 CCCCGGCCCATGCACCA 213 0 1 0 0 0 0.03 0 0 CCCCGGCATCTCCATCA 214 1 0 0 0 0.03 0 0 0 CCCCAGTACCTCCACCA 215 0 1 0 0 0 0.03 0 0 CCCAGCGGTGCCTCCA 216 0 1 0 0 0 0.03 0 0 CCACGCTCTGCTACCA 217 1 0 0 0 0.03 0 0 0 CCACCCTGGAGCCTCCGT 218 0 1 0 0 0 0.03 0 0 ATGGTAGGCACCTGAAA 219 0 0 0 1 0 0 0 0.04 ATGGGCGGTCCTCGTT 220 0 1 0 0 0 0.03 0 0 ATGGCCTGGACCCCACTCCT 221 0 0 0 1 0 0 0 0.04 ATGGCCGCATATATTTT 222 0 0 0 1 0 0 0 0.04 ATCCTGTTCGTGACGCCA 223 0 0 1 0 0 0 0.04 0 ATCCTGCTCACAGCCCCA 224 0 1 0 0 0 0.03 0 0 AGCGAGGGTTCCGCCGGCC 225 0 0 0 1 0 0 0 0.04 ACTGGGGAGGGGGAGGAGCCTCGA 226 0 0 0 1 0 0 0 0.04 GG ACCCCGAGGGGACGGGCG 227 0 1 0 0 0 0.03 0 0 ACAGCGCTGTGTTCCCGT 228 0 0 1 0 0 0 0.04 0 ACAAAAAAAAAAGCCCAACCCT 229 0 0 0 1 0 0 0 0.04 AACTAAAACCCCTACGCA 230 0 0 1 0 0 0 0.04 0 AAAGGAGCCGAATCTTT 231 0 0 1 0 0 0 0.04 0 CCCACCCAGGGACGCCA 232 223 218 6 2 6.46 7.3 0.24 0.08 TCCCCGGCACCTCCACCA 233 60.47 101.82 40.28 34 1.75 3.41 1 .58 1.39 ATCCCGGACGAGCCCCCA 234 48 60 80 45 1.39 2.01 3.14 1.84 CCCACGTTGGGCGCCA 235 37 50 1 0 1.07 1.68 0.04 0 TCGATTCCCGGCCAATGCACCA 236 2.24 15.29 35.88 4 0.06 0.51 1.41 0.16 ATCCCACTTCTGACACCA 237 11 9 26.69 14 0.32 0.3 1.05 0.57 TCGTAGGCACCTGAAA 238 0 0 0 7.94 0 0 0 0.33 TCCCCGTACGGGCCACCA 239 11 6 3 2 0.32 0.2 0.12 0.08 TTGACCGCTCTGACCA 240 4 9 2 5 0.12 0.3 0.08 0.2 CCCAGCGGGGCCTCCA 241 11 8 1 0 0.32 0.27 0.04 0 CAGGAACGGTGCACCA 242 6 10 2 0 0.17 0.34 0.08 0 AGTCCCATCTGGGTCGCCA 243 4 2 3 6 0.12 0.07 0.12 0.25 CCCCCCACTGCTAAATTTGACTGG 244 1 1 6 2 0.03 0.03 0.24 0.08 A GTTTGTTAATTAACCCAA 245 0 0 1 5 0 0 0.04 0.2 GTCCCTTCGTGGTCGCCA 246 1 2 1 2 0.03 0.07 0.04 0.08 CTGTAGCACCTGAAA 247 0 0 0 6 0 0 0 0.25 TCCTCACACGGGGCACCA 248 2 1 2 0 0.06 0.03 0.08 0 TAACGGCCGCGGTACCC 249 0 3 1 0 0 0.1 0.04 0 GAGGGGGACCAAAAAAAA 250 0 0 0 4 0 0 0 0.16 CCCGCATTCTCCACCA 251 3 0 1 0 0.09 0 0.04 0 AGGGGGGTAAAAAAAAA 252 0 0 0 4 0 0 0 0.16 TCCACCGCTGCCACCA 253 0 3 0 0 0 0.1 0 0 GAGCCATGATGATACCACTGAGC 254 0 1 0 2 0 0.03 0 0.08 CGTCCATGATGTTCCGCAA 255 1 0 2 0 0.03 0 0.08 0 CATCCTCTGCTACCA 256 3 0 0 0 0.09 0 0 0 AGAACACTACGAGCCACA 257 3 0 0 0 0.09 0 0 0 ACCCCACTTCTGGTACCA 258 0 0 1 2 0 0 0.04 0.08 TGTATTGTGAGACATTC 259 0 1 1 0 0 0.03 0.04 0 TCTCGGTGGAACCTCCA 260 0 0 1 1 0 0 0.04 0.04 TCCCCGGCACCTCCAA 261 0 1.01 0 0 0 0.03 0 0 TACCGAGCCTGGTGATAGC 262 0 1 1 0 0 0.03 0.04 0 GCAGCGCCAGCCTCCCGCCCTAC 263 2 0 0 0 0.06 0 0 0 CCGCCTGGGGAGTAC 264 0 2 0 0 0 0.07 0 0 ATCCCCAGCACCTCCACCA 265 0 0 0 2 0 0 0 0.08 AGCAGTGATGTCCTGAAAATTCTG 266 0 0 0 2 0 0 0 0.08 AAG ACCCCACTATGCTTAGCCCT 267 0 0 2 0 0 0 0.08 0 AAAGGACCTGGCGGTGCTTC 268 1 0 1 0 0.03 0 0.04 0 TTTGCCACACTGCAACACCTT 269 0 0 1 0 0 0 0.04 0 TTCCTTGGATGTCTGAGTGAC 270 0 0 1 0 0 0 0.04 0 TTAAACCACCAAGATCGCTGATGC 271 0 0 1 0 0 0 0.04 0 AC TGTTCGCCGACCGTTGA 272 0 0 1 0 0 0 0.04 0 TGGGGTCTGGGAGGGA 273 0 1 0 0 0 0.03 0 0 TGGGAGAGCAGGGTATTGT 274 1 0 0 0 0.03 0 0 0 TGCAGATGATGTAAAAGA 275 0 0 1 0 0 0 0.04 0 TCGCTATGATGATGGATTCCAAAA 276 0 0 1 0 0 0 0.04 0 TCCGAAAGGCCTCCCGCACCG 277 0 0 1 0 0 0 0.04 0 TCCCGCACCTCCACCA 278 0 0 1 0 0 0 0.04 0 TAGATGAATAGGTAAAGAG 279 0 0 1 0 0 0 0.04 0 GTGTATGATGACCTCATGTAGCCT 280 0 0 0 1 0 0 0 0.04 GAAC GTGAAGCGTTCCATATTTTT 281 0 0 1 0 0 0 0.04 0 GGGGGGGGGTTTGGAA 282 0 0 0 1 0 0 0 0.04 GGGGGGAGGGAAGGCAA 283 0 0 1 0 0 0 0.04 0 GGGGGCTGGGCTGGGTA 284 0 1 0 0 0 0.03 0 0 GGGGCCGCCGCCTGTGT 285 1 0 0 0 0.03 0 0 0 GGGAGTCCGCGGCGAGC 286 0 0 0 1 0 0 0 0.04 GGGACCTGGGGACCA 287 1 0 0 0 0.03 0 0 0 GGCTTGGTCTAGGGGTA 288 0 0 0 1 0 0 0 0.04 GGCTGGGACCCTGGACAC 289 0 0 0 1 0 0 0 0.04 GGCGACCTGCGACTCCTT 290 0 1 0 0 0 0.03 0 0 GGAGGGGGGAAACAAA 291 0 0 0 1 0 0 0 0.04 GGAGGGGGGAAAAAAAAAA 292 0 0 0 1 0 0 0 0.04 GGAAGACCTGCACCACTGTC 293 0 1 0 0 0 0.03 0 0 GCGGGTGTCAGGCCT 294 1 0 0 0 0.03 0 0 0 GCCGGGCGTGGTGGTCTG 295 0 1 0 0 0 0.03 0 0 GCCGCCGAGACCCCAGGACCC 296 1 0 0 0 0.03 0 0 0 GCAGCCGTGCTTTTA 297 0 1 0 0 0 0.03 0 0 GCAAATGATGCCCTCTGATC 298 0 0 0 1 0 0 0 0.04 GAGGGGGGTCAAAAAAA 299 0 0 0 1 0 0 0 0.04 CTTGATGATGAGCAGGATCTGAG 300 0 0 0 1 0 0 0 0.04 T CTGTAGGCACTGAAA 301 0 0 0 1 0 0 0 0.04 CTGTAGGCACCATTAA 302 0 0 0 1 0 0 0 0.04 CTGCTTAAGTCCTGACCAG 303 0 0 1 0 0 0 0.04 0 CTGAGCACCTTTCCCTTCC 304 0 1 0 0 0 0.03 0 0 CTAGCCCCAAACCCA 305 1 0 0 0 0.03 0 0 0 CGGTCACACGATTAACCCA 306 0 0 1 0 0 0 0.04 0 CGGGGGGAGGAAAAAA 307 0 0 0 1 0 0 0 0.04 CGGGGGGAAAAAAAAA 308 0 0 0 1 0 0 0 0.04 CGGGGCCGCACGCGC 309 1 0 0 0 0.03 0 0 0 CGGGAGTGGGGTGGCGCCCAG 310 1 0 0 0 0.03 0 0 0 CGGGAGCCCCGGGTT 311 1 0 0 0 0.03 0 0 0 CGGACCTGATAAATTCCCAC 312 0 0 1 0 0 0 0.04 0 CGCGGCTCTTGCGGT 313 1 0 0 0 0.03 0 0 0 CGCCTGAGTCAGAAC 314 1 0 0 0 0.03 0 0 0 CGCCGCCGCCCCCCCC 315 0 1 0 0 0 0.03 0 0 CCTTCCTTGGATGTCTGAGTGAG 316 0 0 1 0 0 0 0.04 0 CCTCGCTGGGGCCTCCA 317 1 0 0 0 0.03 0 0 0 CCTCACAGGGACGCCA 318 1 0 0 0 0.03 0 0 0 CCTAGGAGTGCGACAATT 319 0 0 0 1 0 0 0 0.04 CCGCTCTGAGACCTA 320 0 1 0 0 0 0.03 0 0 CCGCCCGTCACCCTCCTCAAGTA 321 0 0 1 0 0 0 0.04 0 CCCGGGCGGCACACCA 322 0 1 0 0 0 0.03 0 0 CCCGCGGGCTTGCTGGGCGTCCC 323 0 1 0 0 0 0.03 0 0 CCCCTGCGATTTCCCCA 324 0 1 0 0 0 0.03 0 0 CCCCGGCATCTCCACTA 325 1 0 0 0 0.03 0 0 0 CCCCAGTGAGTGCCCTCTTCC 326 0 1 0 0 0 0.03 0 0 CCCAGAGACGCCGTCCTCGA 327 1 0 0 0 0.03 0 0 0 CCCACCGAGGATGCCA 328 1 0 0 0 0.03 0 0 0 CCATCACTACCCACCA 329 0 1 0 0 0 0.03 0 0 CCACTCCAGCCTAGCCCC 330 0 1 0 0 0 0.03 0 0 CAGTACAGGCACACCTC 331 0 1 0 0 0 0.03 0 0 CACGTCGGGGTCCCCA 332 1 0 0 0 0.03 0 0 0 CACGATTAACCCAAGTC 333 0 0 1 0 0 0 0.04 0 CACCACACCCGGGCCA 334 1 0 0 0 0.03 0 0 0 CAACACAGGCATGCT 335 0 1 0 0 0 0.03 0 0 ATAGGGTTTACGACCTCGATGTTG 336 0 0 1 0 0 0 0.04 0 GATCA ATACCATGATGAACAATAGCTGAG 337 0 0 0 1 0 0 0 0.04 A AGGGTTCAGCTGTCTC 338 1 0 0 0 0.03 0 0 0 AGGCTGTGATGGACCTGGCTGAGC 339 0 0 0 1 0 0 0 0.04 CTG AGAGAGTAGGGGGAGGT 340 0 1 0 0 0 0.03 0 0 ACTGTCCCTGTCTACTA 341 0 0 0 1 0 0 0 0.04 ACCGCATCTGGCCTATTTTT 342 0 0 0 1 0 0 0 0.04 ACCAGACCTCCTGTGCGAAG 343 0 0 0 1 0 0 0 0.04 ACAGCCCGGATCCCAGCCCACTTA 344 0 0 0 1 0 0 0 0.04 ACACTGAGCCACAACCCA 345 0 0 1 0 0 0 0.04 0 AAGGGCTTGGCTTAATTA 346 0 0 1 0 0 0 0.04 0 AACCCGGAAGGCGGAGGTTGCGG 347 0 0 0 1 0 0 0 0.04 AACCCCACACCAACC 348 0 0 0 1 0 0 0 0.04 AACAAGCTTCTTTGACGTCCCATC 349 0 0 0 1 0 0 0 0.04 CAC TCCCCGGCATCTCCACCA 350 116.53 275.18 104.72 59 3.38 9.22 4.11 2.42 CTGATTGCTCCTGTCTGATT 351 0 0 6 1 0 0 0.24 0.04 TCTAGAGGAGCCTGTTCTGTA 352 0 1 3 0 0 0.03 0.12 0 TCGATTCCCGGTCAGGGAACCA 353 0 0 0 4 0 0 0 0.16 ATAGGTTTGGTCCTAGCCTTTCT 354 0 0 3 1 0 0 0.12 0.04 CGTTCGCGCTTTCCCCTG 355 0 1 2 0 0 0.03 0.08 0 TAAGTGTTTGTGGGTTA 356 1 1 0 0 0.03 0.03 0 0 GGCGGCGGGAGACCCA 357 1 1 0 0 0.03 0.03 0 0 CCCCGGCAGGTTTGA 358 0 2 0 0 0 0.07 0 0 TGCCGTGATCGTATAGTGGTTA 359 0 0 1 0 0 0 0.04 0 TCAGACTACTCTCCTCCGCCCATT 360 0 0 1 0 0 0 0.04 0 GGACACAGAGGCTTCG 361 0 1 0 0 0 0.03 0 0 CTGACAGCCGGGGTTTTGGA 362 0 0 0 1 0 0 0 0.04 CGGCGGGGCCTGGAGTCTG 363 1 0 0 0 0.03 0 0 0 CCTGGCTCGCTGCGCCA 364 1 0 0 0 0.03 0 0 0 CCGCCCCACCCCGCGCGC 365 0 1 0 0 0 0.03 0 0 CCCGAACGCTGCCAACCC 366 0 1 0 0 0 0.03 0 0 AGACCCGCGGGCGCTCTCCAGTC 367 0 0 1 0 0 0 0.04 0 CCCCCACAACCGCGCTTGACTAGC 368 12 11 7 9 0.35 0.37 0.27 0.37 CCCTGCTCGCTGCGCCA 369 7 20 5 1 0.2 0.67 0.2 0.04 CTCCCACTGCTTCACTTGACTAGC 370 2 2 18 9 0.06 0.07 0.71 0.37 CCCATCCTCGTCGCCA 371 16 11 1 1 0.46 0.37 0.04 0.04 TCACGTCGGGGTCACCA 372 16 4 5 1 0.46 0.13 0.2 0.04 TCCCTGGTGGTCTAGTGGTTAGGA 373 0 1 10 6 0 0.03 0.39 0.25 TTCG GGTAGCGTGGCCGAG 374 10 6 0 0 0.29 0.2 0 0 TCCTGCCGCGGTCGCCA 375 6 8 0 1 0.17 0.27 0 0.04 GGAGAGAACGCGGTCTGAGTGGT 376 3 7 1 0 0.09 0.23 0.04 0 TCGGGTGCGAGAGGTCCCGGGT 377 0 0 0 10 0 0 0 0.41 GGCTGGTCCGATGGTAGTGGGTT 378 4 3 3 0 0.12 0.1 0.12 0 CGGAAGCGTGCTGGGCCC 379 1 5 0 4 0.03 0.17 0 0.16 CCCGGGCGGCGCACCA 380 5 4 0 0 0.14 0.13 0 0 GCGGGTGATGCGAACTGGAGTCTG 381 0 0 6 1 0 0 0.24 0.04 AGC GACGAGGTGGCCGAGTGG 382 2 3 2 0 0.06 0.1 0.08 0 GGGGGTGTAGCTCAG 383 4 2 0 0 0.12 0.07 0 0 CTCCTGGCTGGCTCGCCA 384 0 0 3 3 0 0 0.12 0.12 CGGGAGGCCCGGGTT 385 3 3 0 0 0.09 0.1 0 0 GGCTGGTCCGAGTGCAGTGGTGTT 386 0 1 4 0 0 0.03 0.16 0 TA CTGCTGTGATGACATTC 387 1 2 2 0 0.03 0.07 0.08 0 TGTCACGCGGGAGACC 388 0.5 0 1 1 .4 0.01 0 0.04 0.06 TCCTCGTTAGTATAGTGGTGAGTA 389 0 1 3 0 0 0.03 0.12 0 TCCC GGCCGGTTAGCTCAG 390 2 2 0 0 0.06 0.07 0 0 GCATTGGTGGTTCAGTGGTAGA 391 0 0 3 1 0 0 0.12 0.04 CTGTCACGCGGGAGA 392 0.5 0 0 2.6 0.01 0 0 0.11 CTACGGGGATGATTTT 393 3 1 0 0 0.09 0.03 0 0 CCAGGGGCTGAGGGCA 394 1 3 0 0 0.03 0.1 0 0 TTCTCACTACTGCACTTGACTA 395 0 0 2 1 0 0 0.08 0.04 TGGTTATCACGTTCGCC 396 0 2 0 1 0 0.07 0 0.04 TAGGGGTATGATTCTCGCT 397 1 0 0 2 0.03 0 0 0.08 CCACGAGGAAGAGAGGTAGC 398 2 1 0 0 0.06 0.03 0 0 GTCAGGATGGCCGAGCGGTCT 399 0 1 1 0 0 0.03 0.04 0 GGGGATGTAGCTCAG 400 1 1 0 0 0.03 0.03 0 0 GCAGCGATGGCCGAG 401 0 2 0 0 0 0.07 0 0

Three hundred and thirty five sequences aligned to genomic regions which did not fulfill the criteria for miRNA precursors (FIG. 11). About 30% of these non-miRNA sequences were annotated and may represent degradation products originating from other RNA species (FIG. 11 and Table 2).

TABLE 2 Characterization of short-RNA libraries. RNA species Naïve Memory Centroblasts Ramos Total Total (non redundant) 683 710 744 765 2115 miRNA 498 485 584 590 1453 miRNA other* 5 3 7 4 19 tRNA 27 33 32 29 108 rRNA 61 99 34 16 174 mRNA 76 72 25 34 176 yRNA 11 11 31 21 53 piRNA 46 54 70 62 148 Repeats 1 1 0 1 2 Mitochondrial genome 12 36 54 11 101 Human viruses 1 4 0 0 5 E. Coli 5 4 0 0 7 Not Annotated 66 64 74 113 262 Number of non-redundant short-RNAs cloned in each library (naïve, memory, and centroblast B cells, and Ramos cell line) and overall (Total). *miRNA other includes fragments of miRNA precursors, not mature

Each short-RNA is annotated according to the listed RNA species. Results shown in Table 2 refer only to short-RNAs with good-quality matches to the human genome. The same short-RNA may match to multiple databases and therefore the overall sum does not correspond to the total number of short-RNAs. The databases used in the analysis depicted in Table 2 is detailed in the Supplementary Methods section.

The remaining (236 sequences), however, mapped to genomic regions that lack annotations and may therefore represent a part of the transcriptome whose functions are unknown (Table 3A-3B and Table 4A-4B).

TABLE 3A List of short-RNA lacking genomic locations with appropriate RNA secondary structures to be defined miRNAs. SEQ ID ID NO: Short-RNA sequence Annotations CU-5016 402 AATGACACGATCACTCCCGTTGAG Mature:hsa-miR-425:MIMAT0003393 CU-5019 403 GGAGGGGGGGTAAAAAAAA NEW CU-5020 404 CCCCGGCATCTCCACC NEW CU-5004 405 GAAGCGGGTGCTCTTATTTT NEW CU-5021 406 ACCGGGCGGAAACACCA NEW CU-5022 407 TCCCGGGTTCAAATCCCGGACGAGCCCCC NEW A CU-5008 408 GTGTAAGCAGGGTCGTTTT NEW CU-6003 409 ATCCCACCGCTGCTACCA NEW CU-5023 410 GGGAAGGTGACCTGAC NEW CU-5007 411 CTCCCGCCTTTTTTCCC NEW CU-5024 412 CGGAGCAAGAGCGT NEW CU-5025 413 CCCCGTACTGGCCACCA NEW CU-5026 414 CCCCCGGCACCATCAATA NEW CU-5027 415 CAGCCTAGCCCCTACCC NEW CU-5005 416 CAGAAGGTCTCACTTTT NEW CU-5006 417 AGTATTCTCTGTGGCTTT NEW CU-5028 418 TGGAGTGACTATATGGATGCCCCC NEW CU-5029 419 TCTGATAGCTTACTTT NEW CU-5030 420 TCGAGCCCCAGTGGAACCAC NEW CU-5031 421 TCGAATCCTGTTCGTGACGCCA NEW CU-5032 422 TCCTCCCCACACTCATCGCCCTTACCA NEW CU-5033 423 TATACTACAAGGACACCA NEW CU-5034 424 TAGTGGGTGAAAAAAAAAAAA NEW CU-5035 425 TACCACACATTCGAAGAACCCGTA NEW CU-5036 426 TACAAAACCCACCCCATTCCTCCCCA NEW CU-5037 427 GCCCTCCTAATGACCTCC NEW CU-5038 428 CTTCCCTCTACACTTATCATC NEW CU-5039 429 CGGGCGGCCTGCGCTCTCA NEW CU-5040 430 CCCGAGGCCGTGTGCAAATGCAT NEW CU-5041 431 CCCCCAGTACCTCCACCA NEW CU-5042 432 CCCCCACTGCTAAACTTGACTGGCTTT NEW CU-5043 433 COCACTOCACOTTACTACCA NEW CU-5044 434 CCCAAGAACAGGGTGACCA NEW CU-5045 435 CCAGTCGCGGCCAAATCA NEW CU-5046 436 CCAGCTTCACCAAGGTATTGGTTA NEW CU-5047 437 CCAGAAAAAACAGGCCTC NEW CU-5048 438 CATCATAATCGGAGGCTTTGGCAAC NEW CU-5049 439 CAGCAGGGGTAATAAGTGAAATCAAA NEW CU-5050 440 CAATGGTGCAGCCGCTATTAAAGGTTCA NEW CU-5051 1441 CAACTCCTACATACTTCCCCC NEW CU-5052 442 ATTCAAAAAAGAGTACCA NEW CU-5053 443 ATGCATCTCATATGCGAATAGGAATGC NEW CU-5054 444 ATCCCACTTCTGTACCA NEW CU-5055 445 ATAACACTAGAAAGTTGGGGCAGATTGC NEW CU-5056 446 ACGTGGGCACATTACCCGTCTGACCTGA NEW CU-5057 447 ACCCCTTATTAACCCA NEW CU-5058 448 ACAAGGCACACCTACACCCCTTATCCC NEW CU-5059 449 AAAAGACACCCCCCCACCA NEW CU-5060 450 AAAACCCCTACGCATTTATAT NEW CU-5061 451 AAAAAGACACCCCCCACCA NEW CU-5003 452 ACCCCACTCCTGGTACCA refseqGeneIntron-annotate CU-5009 453 TGCCCCCATGTCTAACAACATGGCTA refseqGeneIntron-annotate;rnaGene-annotate CU-5013 454 GGCCGGTGATGAGAACT mRNAaII-annotate;refseqGeneIntron-annotate;wgRNA-annotate; snoRNA-annotate CU-5062 455 CCCCGCCTGTTTACC refseqGeneIntron-annotate CU-5063 456 CCCACTTCTGACACCA computGene-annotate;refseqGeneIntron-annotate;exEID-annotate CU-5064 457 CACCACCTCTTGCTCAGCC mRNA-annotate;refseqGeneIntron-annotate CU-5014 458 CTGGAAAGTGCACTTGGACGAACA refseqGeneIntron-annotate CU-5065 459 TGACCGCTCTGACCAC refseqGeneIntron-annotate CU-5066 460 TGAAGTCCCTTTGCTTTGTT refseqGeneIntron-annotate CU-5067 461 TGAACACACAATAGCTAAGACCC mRNA-annotate;refseqGeneIntron-annotate CU-5068 462 TOGOOTTACCOCCOACTA refseqGeneIntron-annotate CU-5069 463 TCGATAAACCCCGATCAACCT mRNA-annotate;refseqGeneIntron-annotate CU-5070 464 TCCCCGTCACCTCCACCA refseqGeneIntron-annotate CU-5071 465 TCCCCGGCACTCCACCA refseqGeneIntron-annotate CU-5072 466 TCCCCCCGCTGCCACCA refseqGeneIntron-annotate CU-5073 467 TCCCCCCCATCTCCACCA refseqGeneIntron-annotate CU-5074 468 TACACACCGCCCGTCACCC mRNA-annotate;refseqGeneIntron-annotate CU-5075 469 GGCCGGTGATGAGAACTTCTCCC mRNAaII-annotate;refseqGeneIntron-annotate;wgRNA-annotate; snoRNA-annotate CU-5076 470 GCTTAGCCTAGCCACACCCCCACG mRNA-annotate;refseqGeneIntron-annotate CU-5077 471 GCTCGCCAGAACACTACGA mRNA-annotate;refseqGeneIntron-annotate CU-5078 472 GCCGGGGGGCGGGCGCA refseqGeneIntron-annotate CU-5079 473 GAACCGGGCGGGAACACCA refseqGeneIntron-annotate CU-5080 474 CGCCGCAGTACTGATCATTC refseqGeneIntron-annotate CU-5081 475 CCGCACCAATAGGATCCTCC refseqGeneIntron-annotate CU-5082 476 CCCGGCCGACGCACCA refseqGeneIntron-annotate CU-5083 477 CCACCCCATCATACTCTTTC refseqGeneIntron-annotate CU-5084 478 CACCCCCCAGCTCCTCCTTT refseqGeneIntron-annotate CU-5085 479 ATAAGTAACATGAAAACATTCTCCTC refseqGeneIntron-annotate CU-5086 480 ACTGCTCGCCAGAACAC mRNA-annotate;refseqGeneIntron-annotate CU-5087 481 ACCCTGGTGTGGGATCTGCCCGATC refseqGeneIntron-annotate CU-5088 482 AACCTCACCACCTCTTTCT refseqGeneIntron-annotate CU-5089 483 AAAAGACACCCCCCACACCA refseqGeneIntron-annotate CU-5011 484 GCTAAACCTAGCCCCAAACCC piRNA-annotate CU-5010 485 GGCCGTGATCGTATA piRNA-annotate CU-5090 486 TGGGATGCGAGAGGTCCCGGGT rnaGene-annotate CU-5091 487 CTGAACTCCTCACACCC piRNA-annotate CU-5092 488 ATTAATCCCCTGGCCCAACCCG computGene-annotate CU-5093 489 AGCCCCAAACCCACTCCAC piRNA-annotate CU-5094 490 CGCGACCTCAGATCAGAC rRNA-eliminate;piRNA-annotate;refseqGeneIntron-annotate CU-5015 491 TCAAGTGATGTCATCTTACTACTGAGA mRNAaII-annotate;snoRNA-annotate;snoRNA-eliminate;wgRNA- annotate;rnaGene-annotate CU-5095 492 TTGGGTGCGAGAGGTCCCGGGT tRNAcomputational-annotate;tRNA-eliminate;HStRNA- eliminate;rnaGene-annotate CU-5096 493 TCTCGGTGGGACCTCCA refseqGeneExon-eliminate CU-5097 494 CCGCCCCCCGTTCCCCC rRNA-eliminate CU-5098 495 CCCACTGCTAAATTTGACTGGCTT mRNAaII-annotate;yRNA-eliminate;refseqGeneIntron-annotate; rnaGene-annotate CU-5099 496 ACAGACCAAGAGCCTTC tRNA-eliminate;rnaGene-annotate CU-5100 497 TGTAGTAGTCAATTAATGGATATTA refseqGeneExon-eliminate cu-5101 498 TGGTTATCACGTTCGCCTCACACGCGA tRNAcomputational-annotate;tRNA-eliminate;HStRNA- eliminate;rnaGene-annotate CU-5102 499 TGGGAATACCGGGTG rRNA-eliminate;rnaGene-annotate;piRNA-annotate; refseqGeneIntron-annotate CU-5103 500 TGGCGGCCAAGCGTTCATAGCGACGTC rRNA-eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-5104 501 TCGTCATCCAGCTAAGGGCTCAGA mRNAaII-annotate;refseqGeneExon-eliminate;exEID-annotate CU-5105 502 TCGCCTGCCACGCGGGAGGCCCGGGT rnaGene-annotate;tRNAcomputational-annotate;tRNA-eliminate; refseqGeneIntron-annotate;mRNA-annotate;HStRNA-eliminate CU-5106 503 TCCCACTGCTTCACTTGA yRNA-eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-5107 504 GTTTAGACGGGCTCACATCACCCCA tRNA-eliminate;pi RNA-annotate;refseqGeneIntron-annotate CU-5108 505 GCTAACTCATGCCCCCATGTC tRNA-eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-5109 506 GACTGTGGTGGTTGAATATA mRNAaII-annotate;computGene-annotate;refseqGeneExon- eliminate;exEID-annotate CU-5110 507 CGCGACCTCAGATCAGACGTGGCGACC rRNA-eliminate;piRNA-annotate;refseqGeneIntron-annotate CU-5111 508 CGCCGCCGCCCCCCC mRNAaII-annotate;refseqGeneExon-eliminate;refseqGeneIntron- annotate;exEID-annotate CU-5112 509 CGCCCGACTACCACCACATCCA mRNAaII-annotate;computGene-annotate;refseqGeneExon- eliminate;exEID-annotate CU-5113 510 CCCCCCTCCACGCGCCC rRNA-eliminate;refseqGeneIntron-annotate CU-5114 511 CCCCACCCCGCGCCCTC rRNA-eliminate;refseqGeneIntron-annotate CU-5115 512 CAGAGTGTAGCTTAACACAAAGCACCCAA tRNA-eliminate;piRNA-annotate;rnaGene-annotate CU-5116 513 CAATCTTGGCATGTTGGTCTGGTCACCCA mRNAaII-annotate;refseqGeneExon-eliminate;exEID-annotate CU-5117 514 CAAAGCATCGCGAAGGCCC mRNAaII-annotate;rRNA-eliminate;piRNA-annotate;rnaGene- annotate CU-5118 515 AACACCCTGATTGCTCCTGTCTGAT mRNAaII-annotate;exEID-annotate;snoRNA-annotate;refseqGene Exoneliminate;rnaGene-annotate;snoRNA-eliminate;wgRNA- annotate CU-5119 516 AAAAAGGGCCTAAAGAAGATGCA mRNAaII-annotate;computGene-annotate;refseqGeneExon- eliminate;refseqGeneIntron-annotate;exEID-annotate

TABLE 3B List of short-RNA lacking genomic locations with appropriate RNA secondary structures to be defined miRNAs including information on frequencies. SEQ Corrected Counts Frequencies ID Naïve Memory Centroblasts Ramos Naïve Memory Centroblasts Ramos NO: Short-RNA sequence (N) (M) (CB) (RA) (N) (M) (CB) (RA) 525 AATGACACGATCACTCCCGTT 0 0 7 0 0 0 3.98 0 GAG 526 GGAGGGGGGGTAAAAAAAA 0 0 1 0 0 0 0.57 0 527 CCCCGGCATCTCCACC 1 0 0 0 1.72 0 0 0 528 GAAGCGGGTGCTCTTATTTT 5 23 25 224 8.62 20.35 14.2 65.31 529 ACCGGGCGGAAACACCA 9 14 60 20 15.52 12.39 34.09 5.83 530 TCCCGGGTTCAAATCCCGGAC 0 0 4 37 0 0 2.27 10.79 GAGCCCCCA 531 GTGTAAGCAGGGTCGTTTT 0 0 0 7 0 0 0 2.04 532 ATCCCACCGCTGCTACCA 0 1 0 2 0 0.88 0 0.58 533 GGGAAGGTGACCTGAC 2 0 0 0 3.45 0 0 0 534 CTCCCGCCTTTTTTCCC 0 2 0 0 0 1.77 0 0 535 CGGAGCAAGAGCGT 2 0 0 0 3.45 0 0 0 536 CCCCGTACTGGCCACCA 2 0 0 0 3.45 0 0 0 537 CCCCCGGCACCATCAATA 0 0 1 1 0 0 0.57 0.29 538 CAGCCTAGCCCCTACCC 0 2 0 0 0 1.77 0 0 539 CAGAAGGTCTCACTTTT 0 1 0 1 0 0.88 0 0.29 540 AGTATTCTCTGTGGCTTT 0 0 0 2 0 0 0 0.58 541 TGGAGTGACTATATGGATGCC 0 0 1 0 0 0 0.57 0 CCC 542 TCTGATAGCTTACTTT 0 1 0 0 0 0.88 0 0 543 TCGAGCCCCAGTGGAACCAC 0 0 1 0 0 0 0.57 0 544 TCGAATCCTGTTCGTGACGCC 0 0 0 1 0 0 0 0.29 A 545 TCCTCCCCACACTCATCGCCC 0 0 1 0 0 0 0.57 0 TTACCA 546 TATACTACAAGGACACCA 0 0 0 1 0 0 0 0.29 547 TAGTGGGTGAAAAAAAAAAAA 0 0 0 1 0 0 0 0.29 548 TACCACACATTCGAAGAACCC 0 0 1 0 0 0 0.57 0 GTA 549 TACAAAACCCACCCCATTCCT 0 1 0 0 0 0.88 0 0 CCCCA 550 GCCCTCCTAATGACCTCC 0 0 1 0 0 0 0.57 0 551 CTTCCCTCTACACTTATCATC 0 0 1 0 0 0 0.57 0 552 CGGGCGGCCTGCGCTCTCA 1 0 0 0 1.72 0 0 0 553 CCCGAGGCCGTGTGCAAATG 0 0 1 0 0 0 0.57 0 CAT 554 CCCCCAGTACCTCCACCA 0 1 0 0 0 0.88 0 0 555 CCCCCACTGCTAAACTTGACT 0 0 1 0 0 0 0.57 0 GGCTTT 556 CCCACTCCACCTTACTACCA 0 0 0 1 0 0 0 0.29 557 CCCAAGAACAGGGTGACCA 0 0 0 1 0 0 0 0.29 558 CCAGTCGCGGCCAAATCA 0 1 0 0 0 0.88 0 0 559 CCAGCTTCACCAAGGTATTGG 0 0 1 0 0 0 0.57 0 TTA 560 CCAGAAAAAACAGGCCTC 0 0 0 1 0 0 0 0.29 561 CATCATAATCGGAGGCTTTGG 0 0 1 0 0 0 0.57 0 CAAC 562 CAGCAGGGGTAATAAGTGAAA 0 0 1 0 0 0 0.57 0 TCAAA 563 CAATGGTGCAGCCGCTATTAA 0 0 0 1 0 0 0 0.29 AGGTTCA 564 CAACTCCTACATACTTCCCCC 1 0 0 0 1.72 0 0 0 565 ATTCAAAAAAGAGTACCA 0 0 1 0 0 0 0.57 0 566 ATGCATCTCATATGCGAATAG 0 0 1 0 0 0 0.57 0 GAATGC 567 ATCCCACTTCTGTACCA 0 1 0 0 0 0.88 0 0 568 ATAACACTAGAAAGTTGGGGC 0 0 1 0 0 0 0.57 0 AGATTGC 569 ACGTGGGCACATTACCCGTCT 0 0 0 1 0 0 0 0.29 GACCTGA 570 ACCCCTTATTAACCCA 0 1 0 0 0 0.88 0 0 571 ACAAGGCACACCTACACCCCT 0 0 1 0 0 0 0.57 0 TATCCC 572 AAAAGACACCCCCCCACCA 0 0 0 1 0 0 0 0.29 573 AAAACCCCTACGCATTTATAT 0 0 1 0 0 0 0.57 0 574 AAAAAGACACCCCCCACCA 0 0 0 1 0 0 0 0.29 575 ACCCCACTCCTGGTACCA 1 11 5 6 1.72 9.73 2.84 1.75 576 TGCCCCCATGTCTAACAACAT 7 4 1 1 12.07 3.54 0.57 0.29 GGCTA 577 GGCCGGTGATGAGAACT 4 3 0 0 6.9 2.65 0 0 578 CCCCGCCTGTTTACC 0 5 2 0 0 4.42 1.14 0 579 CCCACTTCTGACACCA 3 4 0 0 5.17 3.54 0 0 580 CACCACCTCTTGCTCAGCC 1 3 0 0 1.72 2.65 0 0 581 CTGGAAAGTGCACTTGGACGA 0 2 0 0 0 1.77 0 0 ACA 582 TGACCGCTCTGACCAC 0 1 0 0 0 0.88 0 0 583 TGAAGTCCCTTTGCTTTGTT 1 0 0 0 1.72 0 0 0 584 TGAACACACAATAGCTAAGAC 0 0 1 0 0 0 0.57 0 CC 585 TCGCCTTACCCCCCACTA 0 1 0 0 0 0.88 0 0 586 TCGATAAACCCCGATCAACCT 0 0 1 0 0 0 0.57 0 587 TCCCCGTCACCTCCACCA 0 0 1 0 0 0 0.57 0 588 TCCCCGGCACTCCACCA 0 0 1 0 0 0 0.57 0 589 TCCCCCCGCTGCCACCA 1 0 0 0 1.72 0 0 0 590 TCCCCCCCATCTCCACCA 0 0 1 0 0 0 0.57 0 591 TACACACCGCCCGTCACCC 0 0 1 0 0 0 0.57 0 592 GGCCGGTGATGAGAACTTCTC 1 0 0 0 1.72 0 0 0 CC 593 GCTTAGCCTAGCCACACCCCC 0 0 1 0 0 0 0.57 0 ACG 594 GCTCGCCAGAACACTACGA 0 0 1 0 0 0 0.57 0 595 GCCGGGGGGCGGGCGCA 0 1 0 0 0 0.88 0 0 596 GAACCGGGCGGGAACACCA 0 0 0 1 0 0 0 0.29 597 CGCCGCAGTACTGATCATTC 0 0 1 0 0 0 0.57 0 598 CCGCACCAATAGGATCCTCC 0 1 0 0 0 0.88 0 0 599 CCCGGCCGACGCACCA 1 0 0 0 1.72 0 0 0 600 CCACCCCATCATACTCTTTC 0 0 1 0 0 0 0.57 0 601 CACCCCCCAGCTCCTCCTTT 1 0 0 0 1.72 0 0 0 602 ATAAGTAACATGAAAACATTCT 0 0 1 0 0 0 0.57 0 CCTC 603 ACTGCTCGCCAGAACAC 0 0 1 0 0 0 0.57 0 604 ACCCTGGTGTGGGATCTGCC 0 0 1 0 0 0 0.57 0 CGATC 605 AACCTCACCACCTCTTTCT 0 0 1 0 0 0 0.57 0 606 AAAAGACACCCCCCACACCA 0 0 0 1 0 0 0 0.29 607 GCTAAACCTAGCCCCAAACCC 9 16 13 18 15.52 14.16 7.39 5.25 608 GGCCGTGATCGTATA 2 0 0 0 3.45 0 0 0 609 TGGGATGCGAGAGGTCCCGG 0 0 0 1 0 0 0 0.29 GT 610 CTGAACTCCTCACACCC 0 1 0 0 0 0.88 0 0 611 ATTAATCCCCTGGCCCAACCC 0 0 0 1 0 0 0 0.29 G 612 AGCCCCAAACCCACTCCAC 0 0 1 0 0 0 0.57 0 613 CGCGACCTCAGATCAGAC 1 5 8 1 1.72 4.42 4.55 0.29 614 TCAAGTGATGTCATCTTACTAC 0 0 3 1 0 0 1.7 0.29 TGAGA 615 TTGGGTGCGAGAGGTCCCGG 0 0 0 3 0 0 0 0.87 GT 616 TCTCGGTGGGACCTCCA 0 2 0 0 0 1.77 0 0 617 CCGCCCCCCGTTCCCCC 1 1 0 0 1.72 0.88 0 0 618 CCCACTGCTAAATTTGACTGG 0 0 1 1 0 0 0.57 0.29 CTT 619 ACAGACCAAGAGCCTTC 0 0 2 0 0 0 1.14 0 620 TGTAGTAGTCAATTAATGGATA 0 0 1 0 0 0 0.57 0 TTA 621 TGGTTATCACGTTCGCCTCAC 0 0 0 1 0 0 0 0.29 ACGCGA 622 TGGGAATACCGGGTG 0 0 1 0 0 0 0.57 0 623 TGGCGGCCAAGCGTTCATAG 0 0 0 1 0 0 0 0.29 CGACGTC 624 TCGTCATCCAGCTAAGGGCTC 0 0 1 0 0 0 0.57 0 AGA 625 TCGCCTGCCACGCGGGAGGC 0 0 1 0 0 0 0.57 0 CCGGGT 626 TCCCACTGCTTCACTTGA 0 0 0 1 0 0 0 0.29 627 GTTTAGACGGGCTCACATCAC 0 0 1 0 0 0 0.57 0 CCCA 628 GCTAACTCATGCCCCCATGTC 0 0 1 0 0 0 0.57 0 629 GACTGTGGTGGTTGAATATA 0 0 0 1 0 0 0 0.29 630 CGCGACCTCAGATCAGACGT 0 0 1 0 0 0 0.57 0 GGCGACC 631 CGCCGCCGCCCCCCC 0 1 0 0 0 0.88 0 0 632 CGCCCGACTACCACCACATCC 1 0 0 0 1.72 0 0 0 A 633 CCCCCCTCCACGCGCCC 0 1 0 0 0 0.88 0 0 634 CCCCACCCCGCGCCCTC 0 1 0 0 0 0.88 0 0 635 CAGAGTGTAGCTTAACACAAA 0 0 1 0 0 0 0.57 0 GCACCCAA 636 CAATCTTGGCATGTTGGTCTG 0 0 1 0 0 0 0.57 0 GTCACCCA 637 CAAAGCATCGCGAAGGCCC 0 0 1 0 0 0 0.57 0 638 AACACCCTGATTGCTCCTGTC 0 0 1 0 0 0 0.57 0 TGAT 639 AAAAAGGGCCTAAAGAAGATG 0 0 1 0 0 0 0.57 0 CA

TABLE 4A List of short-RNA consensus with maximum 1 mismatch to the human genome. SEQ ID ID NO: Short-RNA sequence Annotations CU-6232 640 TGGCTCAGTTCAGCAGGAACAGT Mature:hsa-miR-24MIMAT0000080 CU-6180 641 GTGGGGGAGAGGCTGTCGA Mature:hsa-miR-1275:MIMAT0005929 CU-6130 642 CGGGGCAGCTCAGTACAGGATT Mature:hsa-miR-486-3p:MIMAT0004762 CU-6044 643 AATTGCACGGTATCCATCTGTAT Mature:hsa-miR-363:MIMAT0000707 CU-6133 644 CGGGGGAGCGCCGCGTA NEW CU-6215 645 TCGATCCCGGGTTTCGGCACCA NEW CU-6072 646 ATCGTATCCCACTTCTGACACCA NEW CU-6030 647 ATCCTGCCGACTACGCCA NEW CU-6210 648 TCGAATCCCACTCCTGACACCA NEW CU-6069 649 ATCCCATCCTCGTCGCCA NEW CU-6216 650 TCGATTCCCCGACGGGGAGCCA NEW CU-6071 651 ATCCGGGTGCCCCCTCCA NEW CU-6202 652 TCCCGGGCGGCGCACCA NEW CU-6066 653 ATCCCACCAGAGTCGCCA NEW CU-6192 654 TCAAATCACGTCGGGGTCACCA NEW CU-6239 655 TGTCAGTTTGTTAATTGACCCAA NEW CU-6214 656 TCGATCCCCGTACGGGCCACCA NEW CU-6213 657 TCGAGCCTCACCTGGAGCACCA NEW CU-6206 658 TCCGGCTCGAAGGACCA NEW CU-6006 659 GGCAATACGAGCACCCTG NEW CU-6004 660 CCGGGGCGTCTCGTAC NEW CU-6056 661 AGCGGCTGTGCACAAA NEW CU-6242 662 TGTCAGTTTGTTTAATCCAA NEW CU-6241 663 TGTCAGTTTGTTATTACCAA NEW CU-6237 664 TGTCAGGCACCATCAATAA NEW CU-6225 665 TGATCTTGACACTTAAAGCC NEW CU-6219 666 TCGTAGGCACCATCAAT NEW CU-6211 667 TCGACTCCCGGTATGGGAACCA NEW CU-6187 668 TAGGGAGGTTATGATTAACTTTT NEW CU-6183 669 TAAAGTGCTTAGTGCAGGTA NEW CU-6181 670 GTTTATGTTGCTTACCTCC NEW CU-6176 671 GTAGATAAAATATTGGCG NEW CU-6163 672 GGCGGGGACGACGTCAG NEW CU-6162 673 GGCGGCGTCGCGGCGGGTC NEW CU-6161 674 GGAGGGGGTGAACAAAAAGAAAAA NEW CU-6159 675 GCTAAACCTAGCCCCAAACCCACTCCACA NEW CU-6142 676 CTGGATAGCGCACTTCGTT NEW CU-6129 677 CGGGCGAGGGGCGGACGTTCG NEW CU-6123 678 CGGACCTATACCGGA NEW CU-6096 679 CCCCGGGTTCAATCCCCGGCACCTCCACC NEW A CU-6088 680 CCCCCCACAACCGCGAA NEW CU-6087 681 CCCAGCATCTCCTGTGTTTA NEW CU-6086 682 CCCACGTTGGGACGCCA NEW CU-6064 683 ATCACGTCCGTGCCTCCA NEW CU-6063 684 ATAGCAATGTCAGCAGTACCT NEW CU-6051 685 ACCCTGCTCGCTGCGCCA refseqGeneIntron-annotate CU-6198 686 TCCCACCCAGGGACGCCA refseqGeneIntron-annotate CU-6218 687 TCGTAGGCACATCAATA refseqGeneIntron-annotate CU-6007 688 CCCCCACAACCGCGTA refseqGeneIntron-annotate CU-6001 689 ACCCCGTCCGTGCCTCCA refseqGeneIntron-annotate CU-6039 690 AAAAAAGACACCCCCCACA refseqGeneIntron-annotate CU-6005 691 TGTCAGTTTGTTAACCCAA refseqGeneIntron-annotate CU-6204 692 TCCCTGTGGTCTAGTGGTTAGG refseqGeneIntron-annotate CU-6172 693 GGGGGGGTAAAAAAA refseqGeneIntron-annotate CU-6171 694 GGGGGGGGAAAAAAAA refseqGeneIntron-annotate CU-6128 695 CGGGCCCGGGTCTTCCC refseqGeneIntron-annotate CU-6002 696 CCGCCCCCCGTTCCCCCCA refseqGeneIntron-annotate CU-6050 697 ACCCCCGGCTCCTCCACCA refseqGeneIntron-annotate CU-6244 698 TTTGGTGGAAATTTTTTGA refseqGeneIntron-annotate CU-6240 699 TGTCAGTTTGTTATACCAA refseqGeneIntron-annotate CU-6238 700 TGTCAGTTTGTAATTATCCCAA refseqGeneIntron-annotate CU-6236 701 TGTCAATTTTTAACCCAA refseqGeneIntron-annotate CU-6227 702 TGCTAGGGTAAAAAAAAAA refseqGeneIntron-annotate CU-6226 703 TGCAACTCCAAATAAAAGTACCA refseqGeneIntron-annotate CU-6224 704 TGAGGTAACGGGGAATTA refseqGeneIntron-annotate CU-6209 705 TCCTCGGCATCTCCACCA refseqGeneIntron-annotate CU-6197 706 TCATATGAAGTCACCCTAGCCATC mitochondrion-annotate;refseqGeneIntron-annotate CU-6196 707 TCAGTTTGTTTATTAACCCAA refseqGeneIntron-annotate CU-6195 708 TCAGCGTGTCTTTGCCCT refseqGeneIntron-annotate CU-6194 709 TCACTGGTGGTCTAGTGGT refseqGeneIntron-annotate;rnaGene-annotate CU-6193 710 TCACAATGCTGCCACCA refseqGeneIntron-annotate CU-6189 711 TAGTTGTTAATTAACCCAA refseqGeneIntron-annotate CU-6188 712 TAGTCCTCATCGCCCTCC mitochondrion-annotate;refseqGeneIntron-annotate CU-6184 713 TAAAGTGCTTATAGTGCGGGTAA refseqGeneIntron-annotate CU-6179 714 GTCCCACCAGAGTCGCCA refseqGeneIntron-annotate CU-6170 715 GGGGGAGGGGCCAAAAAAA refseqGeneIntron-annotate CU-6167 716 GGGACGCCGCGGTGTCG refseqGeneIntron-annotate CU-6166 717 GGGAATACCGGGTGCTTTAGGCTT refseqGeneIntron-annotate;rnaGene-annotate CU-6160 718 GGAAGAAGGTGGTGGTATA refseqGeneIntron-annotate CU-6156 719 GCGGTGAAATGCGTA computGene-annotate;Ecoli-annotate;refseqGeneIntron- annotate CU-6154 720 GCGGGGAAGGTGGCAAA refseqGeneIntron-annotate CU-6152 721 GCGACGACCTCGCGCCCACCTGGTCA refseqGeneIntron-annotate CU-6151 722 GCCACCCGATACTGCTGT refseqGeneIntron-annotate CU-6150 723 GATGTATGCTTTGTTTCTGTT refseqGeneIntron-annotate CU-6148 724 GAGGGGGATTTAGAAAAAAA refseqGeneIntron-annotate CU-6147 725 GAAGGAAAGTTCTATAGT refseqGeneIntron-annotate CU-6146 726 GAAGCGGCTCTCTTATTT refseqGeneIntron-annotate CU-6145 727 GAACGAGACTCTGGCATGCTGA refseqGeneIntron-annotate;rnaGene-annotate CU-6143 728 CTGGTAGGCCCATCAAT refseqGeneIntron-annotate CU-6132 729 CGGGGCCGATCGCGCGC computGene-annotate;refseqGeneIntron-annotate CU-6125 730 CGGCCCCGGGTTCCTCCC computGene-annotate;refseqGeneIntron-annotate CU-6118 731 CGAGCCCGGTTAGTA refseqGeneIntron-annotate;rnaGene-annotate CU-6117 732 CGACTCTTAGCGGTGGA piRNA-annotate;refseqGeneIntron-annotate CU-6116 733 CGAATCCCACTTCTGACACCA refseqGeneIntron-annotate CU-6113 734 CGAAAGGGAATCGGGTC refseqGeneIntron-annotate CU-6112 735 CCTTAGGTCGCTGGTAAA refseqGeneIntron-annotate CU-6108 736 CCGTGCGAGAATACCA refseqGeneIntron-annotate CU-6107 737 CCGGTCTCTCAAGCGGCC refseqGeneIntron-annotate CU-6099 738 CCCGGCCCTCGCGCGTCC computGene-annotate;refseqGeneIntron-annotate CU-6094 739 CCCCGGCATTTCCACCA computGene-annotate;refseqGeneIntron-annotate CU-6090 740 CCCCCCCGGCTCCTCCACCA refseqGeneIntron-annotate CU-6089 741 CCCCCCACAACCGCTA refseqGeneIntron-annotate CU-6085 742 CCCAAGTATTGACTCACCC mitochondrion-annotate;refseqGeneIntron-annotate CU-6084 743 CCAGTAAGCGCGAGTC refseqGeneIntron-annotate CU-6082 744 CCAAAGAAAGCACGTAGAG refseqGeneIntron-annotate CU-6081 745 CATGTTTAACGGCCGCGGT mitochondrion-annotate;refseqGeneIntron-annotate CU-6080 746 CAGTTTGTAATTAACCCAA refseqGeneIntron-annotate CU-6079 747 CAGGAACGGCGCACCA computGene-annotate;refseqGeneIntron-annotate CU-6078 748 CAGAACCCTCTAAATCCCC mitochondnon-annotate;refseqGeneIntron-annotate CU-6076 749 CACCCGGCTGTGTGCACATGTGT miRBASE-annotate;computGene-annotate;refseqGeneIntron- annotate;wgRNA-annotate CU-6075 750 CAATTGGACCAATCTATC mitochondnion-annotate;refseqGeneIntron-annotate CU-6074 751 ATTCCTGTACTGCGATA refseqGeneIntron-an notate CU-6070 752 ATCCCTGCGGCGTCTCCA refseqGeneIntron-annotate CU-6067 753 ATCCCACCGCTGCCATCA refseqGeneIntron-annotate CU-6062 754 AGTCAATAGAAGCCGGCGTA mitochondnion-annotate;refseqGeneIntron-annotate CU-6061 755 AGGTTCGTTTGTAAAAA refseqGeneIntron-annotate CU-6060 756 AGGTCCTGGGTTTAAGTGT coMputGene-annotate;refseqGeneIntron-annotate CU-6058 757 AGGGGGAAGTTCTATAGTC refseqGeneIntron-annotate CU-6057 758 AGGCTGTGATGCTCTCNTGAGCCCT refseqGeneIntron-annotate CU-6055 759 AGCCCCTCTCCGGCCCTTA refseqGeneIntron-annotate CU-6054 760 ACTACCACCTACCTCCC mitochondnion-annotate;refseqGeneIntron-annotate CU-6052 761 ACGCCCTTCCCCCCCTTCTTT miRBASE-annotate;refseqGeneIntron-annotate CU-6049 762 ACCCCACTCCTGGTGCAC refseqGeneIntron-annotate CU-6048 763 ACCACCTGATCCCTTCCC refseqGeneIntron-annotate CU-6047 764 ACAGCTAAGCACCCACCA refseqGeneIntron-annotate CU-6045 765 ACACATGTTTAACGGCC mitochondrion-annotate;refseqGeneIntron-annotate CU-6043 766 AATTAGGGACCTGTATG refseqGeneIntron-annotate CU-6042 767 AATGGCCCATTTGGGCAAACA computGene-annotate;refseqGeneIntron-annotate CU-6041 768 AAAGCGGCTGTGCAAACA refseqGeneIntron-annotate CU-6212 769 TCGACTCCTGGCTGGCTCGCCA wgRNA-annotate CU-6200 770 TCCCCGGCATCTCCACCAA computGene-annotate CU-6157 771 GCGGTGGATCACTCGGCTCGTGCGT rnaGene-annotate CU-6105 772 CCGGGTGTTGTAGA mRNAaII-annotate;exEID-annotate CU-6235 773 TGTAGCGTGGCCGAGCGGT rnaGene-annotate CU-6234 774 TGGGGCGACCTCGGAGCAG mitochondrion-annotate CU-6230 775 TGGCGTCCTAAGCCAGGGATTGTGGGT rnaGene-annotate CU-6229 776 TGGCAGGGGAGATACCATGATTT rnaGene-annotate CU-6222 777 TCTGATCAGGGTGAGCATC mitochondrion-annotate CU-6220 778 TCGTAGGCACCATCCAT computGene-annotate CU-6165 779 GGGAAACGGGGCGCGGCTG rnaGene-annotate CU-6137 780 CTACTCCTGCTCGCATCTGCTATA mitochondrion-annotate CU-6135 781 CGGGTGGGTTTTTACCGG computGene-annotate CU-6120 782 CGAGGAATTCCCAGTAAG rnaGene-annotate CU-6115 783 CGAACGCACTTGCGGCCCC rnaGene-annotate CU-6093 784 CCCCGCGCGGGTTCGAATC rnaGene-annotate CU-6059 785 AGGGGTATGATTCCCGCTT rnaGene-annotate CU-6131 786 CGGGGCCACGCGCGCGTC mRNA-annotate;rRNA-eliminate CU-6032 787 TGGCGCTGCGGGATGAAC rRNA-eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-1153 788 CCCCCCACTGCTAAATTTGACTGGCTT yRNA-eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-6182 789 TAAAGGTTCGTTTGTAAAA computGene-annotate;refseqGeneExon-eliminate CU-6033 790 CGGGGCCGAGGGAGCGA rRNA-eliminate;refseqGeneExon-eliminate;refseqGeneIntron- annotate CU-6174 791 GGGTTAGGCCTCTTTT tRNA-eliminate;rnaGene-annotate CU-6141 792 CTGCGGAAGGATCATTA rRNA-eliminate;rnaGene-annotate CU-6101 793 CCCTACCCCCCCGG rRNA-eliminate;refseqGeneIntron-annotate CU-6034 794 CCCGCCGGGTCCGCCC computGene-annotate;rRNA-eliminate;refseqGeneExon- eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-6035 795 CCCCGCGCCCTCTCTCTCTC rRNA-eLiminate;refseqGeneIntron-annotate CU-6028 796 CAGGCCTCCCTGGAATC computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6029 797 AGTCCCACCCGGGGTACCA computGene-annotate;refseqGeneExon-eliminate CU-6243 798 TTGACACGCCCCAGTGCCCTGT refseqGeneExon-eliminate CU-6233 799 TGGGAGCGGGCGGGCGGTC rRNA-eliminate;rnaGene-annotate CU-6231 800 TGGCGTGGAGCCGGGCGT rRNA-eliminate;refseqGeneIntron-annotate CU-6228 801 TGGAGGTCCGTAGCGGT rRNA-eliminate;mRNA-annotate;refseqGeneIntron-annotate; rnaGene-annotate CU-6223 802 TGAAGAAGGTCTCGAACA computGene-annotate;refseqGeneExon-eliminate CU-6221 803 TCTCGCCGGGGCTTCCA computGene-annotate;refseqGeneExon-eliminate;rnaGene- annotate CU-6217 804 TCGTAGCACCATCAATAA computGene-annotate;refseqGeneExon-eliminate CU-6208 805 TCCGGGTCCCCCCTCCA computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6207 806 TCCGGGGCTGCACGCGCGCT rRNA-eliminate;rnaGene-annotate CU-6205 807 TCCGGCCGTGTCGGT computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6203 808 TCCCTGTCCTCCAGGAGT miRBASE-annotate;computGene-annotate;refseqGeneExon- eliminate;refseqGeneIntron-annotate;wgRNA-annotate CU-6201 809 TCCCCTCCTCGTCGCCA refseqGeneExon-eliminate;refseqGeneIntron-annotate CU-6199 810 TCCCAGGTAGTCTAGTGGT refseqGeneExon-eliminate;refseqGeneIntron-annotate;rnaGene- annotate CU-6191 811 TATTCATTTATCCCCAGCCTAT miRBASE-annotate;snoRNA-eliminate;refseqGeneIntron- annotate;wgRNA-annotate;rnaGene-annotate CU-6190 812 TAGTTGTTATAACCCAA refseqGeneExon-eliminate;refseqGeneIntron-annotate CU-6186 813 TAGATCACCCCCTCCCC mitochondrion-annotate;refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6185 814 TACCGGCACCTGGCGCC computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6178 815 GTATAGGGGCGAAAGAC rRNA-eliminate;mRNA-annotate;refseqGeneIntron-annotate; rnaGene-annotate CU-6177 816 GTAGCTGGTTCCCTCCGAA rRNA-eliminate;mRNA-annotate;refseqGeneIntron-annotate; rnaGene-annotate CU-6175 817 GGTAAGAAGCCCGGCTC computGene-annotate;rRNA-eliminate;refseqGeneExon- eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-6173 818 GGGGGGGTTTAAAAAAAAA refseqGeneExon-eliminate;refseqGeneIntron-annotate CU-6169 819 GGGGCGCACTACCGGCC refseqGeneExon-eliminate CU-6168 820 GGGAGAGGCTGTCGCTGCG computGene-annotate; refseqGeneExon-eliminate CU-6164 821 GGCGGGTGAAGCGGCG computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6158 822 GCGGTTCCGGCGGCGTC rRNA-eliminate;refseqGeneExon-eliminate;refseqGeneIntron- annotate CU-6155 823 GCGGGGCGCCTAGGCCTGGTTTGT refseqGeneExon-eliminate CU-6153 824 GCGGCGGTCGGCGGGCGGCGGG rRNA-eliminate;refseqGeneExon-eliminate;refseqGeneIntron- annotate CU-6149 825 GAGGGGGGGGGTGGGGGGGGA refseqGeneExon-eliminate;refseqGeneIntron-annotate CU-6144 826 CTGTCGGCCACCATCAT computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6140 827 CTGCAACTCGACCCCA computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6139 828 CTCCTCTCCCCGCCCGCCG refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6138 829 CTCAAAGATTAAGCCATGCATGTCTA rRNA-eliminate;rnaGene-annotate CU-6136 830 CTACGCCGCGACGAG computGene-annotate;rRNA-eliminate CU-6134 831 CGGGTGACGGGGAATCAGGGTT rRNA-eliminate;rnaGene-annotate CU-6127 832 CGGGCAGCTTCCGGGA computGene-annotate;rRNA-eliminate;refseqGeneExon- eliminate;refseqGeneIntron-annotate CU-6126 833 CGGGAGGCCCGGGTCCTG refseqGeneExon-eliminate;refseqGeneIntron-annotate CU-6124 834 CGGCCCCGCATCCTCCC computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6122 835 CGCGGGTAAACGGCGGGAGTAACTAT mRNAaII-annotate;rRNA-eliminate;refseqGeneIntron-annotate; rnaGene-annotate CU-6121 836 CGCCCCCCGTTCCCCCCTCC rRNA-eliminate CU-6119 837 CGAGCGGAAACACCA computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6114 838 CGAACCCGGCACCGC computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6111 839 CCTCGGGCCGATCGCAC rRNA-eliminate;rnaGene-annotate CU-6110 840 CCTATATATCTTACCA computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6109 841 CCGTGGCGGCGACGACC computGene-annotate;rRNA-eliminate;refseqGeneExon-eliminate CU-6106 842 CCGGGTTCCGGCACCA computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6104 843 CCGCGAGGGGGGCCCG computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6103 844 CCGCCTCACGGGACCA computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6102 845 CCGCCCGTCCCCGCCCCTTG rRNA-eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-6100 846 CCCGGGGCCGCGGTTCCG computGene-annotate;rRNA-eliminate;refseqGeneIntron- annotate CU-6098 847 CCCGAGCCGCCTGGAT computGene-annotate;rRNA-eliminate;refseqGeneExon- eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-6097 848 CCCGACGGCCGAACT computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6095 849 CCCCGGGGAGCCCGGCGGG computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6092 850 CCCCCTCGCGGCCCTCCCC rRNA-eliminate;refseqGeneIntron-annotate CU-6091 851 CCCCCCGTGGCGGCGAC rRNA-eliminate;refseqGeneIntron-annotate CU-6083 852 CCACCCAGGGCACGCCA refseqGeneExon-eliminate;refseqGeneIntron-annotate CU-6077 853 CACGGGTGACGGGGAA computGene-annotate;rnaGene-annotate;refseqGeneIntron- annotate;rRNA-eliminate;refseqGeneExon-eliminate;piRNA- annotate CU-6073 854 ATGGGGAGGAAAAAAAAAAAAAA refseqGeneExon-eliminate;refseqGeneIntron-annotate CU-6068 855 ATCCCACCGCTGCCCCCA computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6065 856 ATCACGTCGGTCACCA computGene-annotate;refseqGeneExon-eliminate;refseqGene Intron-annotate CU-6053 857 ACGGGAAACCTCACCCGGCCCGG rRNA-eliminate;piRNA-annotate;rnaGene-annotate CU-6046 858 ACAGAGGCTTACGACCCCTTATTT mitochondrion-annotate;tRNA-eliminate;refseqGeneIntron- annotate;rnaGene-annotate CU-6040 859 AAAAAGGCATAATTAAACTT mitochondrion-annotate;refseqGeneExon-eliminate; refseqGeneIntron-annotate

TABLE 4B List of short-RNA consensus with maximum 1 mismatch to the human genome. Table includes information on genomic frequencies. Corrected Counts Frequencies SEQ Memory Centroblasts Ramos Memory Centroblasts Ramos ID NO: Short-RNA sequence Naïve (N) (M) (CB) (RA) Naïve (N) (M) (CB) (RA) 860 TGGCTCAGTTCAGCAGGAACAGT 0 0 1 0 0 0 1.05 0 861 GTGGGGGAGAGGCTGTCGA 0 0 0 1 0 0 0 0.81 862 CGGGGCAGCTCAGTACAGGATT 0 0 1 0 0 0 1.05 0 863 AATTGCACGGTATCCATCTGTAT 0 0 1 0 0 0 1.05 0 864 CGGGGGAGCGCCGCGTA 2 0 0 0 2.04 0 0 0 865 TCGATCCCGGGTTTCGGCACCA 0 0 1 0 0 0 1.05 0 866 ATCGTATCCCACTTCTGACACCA 0 0 0 1 0 0 0 0.81 867 ATCCTGCCGACTACGCCA 13 15 13 613.27 13.76 13.68 4.88 868 TCGAATCCCACTCCTGACACCA 1 2 7 71.02 1.83 7.37 5.69 869 ATCCCATCCTCGTCGCCA 0 0 10 3 0 0 10.53 2.44 870 TCGATTCCCCGACGGGGAGCCA 1 1 1 9 1.02 0.92 1.05 7.32 871 ATCCGGGTGCCCCCTCCA 2 4 0 1 2.04 3.67 0 0.81 872 TCCCGGGCGGCGCACCA 2 2 1 0 2.04 1.83 1.05 0 873 ATCCCACCAGAGTCGCCA 0 0 2 3 0 0 2.11 2.44 874 TCAAATCACGTCGGGGTCACCA 0 1 2 0 0 0.92 2.11 0 875 TGTCAGTTTGTTAATTGACCCAA 0 0 1 1 0 0 1.05 0.81 876 TCGATCCCCGTACGGGCCACCA 0 0 1 1 0 0 1.05 0.81 877 TCGAGCCTCACCTGGAGCACCA 0 0 2 0 0 0 2.11 0 878 TCCGGCTCGAAGGACCA 0 0 2 0 0 0 2.11 0 879 GGCAATACGAGCACCCTG 2 0 0 0 2.04 0 0 0 880 CCGGGGCGTCTCGTAC 2 0 0 0 2.04 0 0 0 881 AGCGGCTGTGCACAAA 0 0 0 2 0 0 0 1.63 882 TGTCAGTTTGTTTAATCCAA 0 0 0 1 0 0 0 0.81 883 TGTCAGTTTGTTATTACCAA 0 0 0 1 0 0 0 0.81 884 TGTCAGGCACCATCAATAA 0 0 0 1 0 0 0 0.81 885 TGATCTTGACACTTAAAGCC 0 0 0 1 0 0 0 0.81 886 TCGTAGGCACCATCAAT 0 0 0 1 0 0 0 0.81 887 TCGACTCCCGGTATGGGAACCA 0 0 0 1 0 0 0 0.81 888 TAGGGAGGTTATGATTAACTTTT 0 0 0 1 0 0 0 0.81 889 TAAAGTGCTTAGTGCAGGTA 0 0 0 1 0 0 0 0.81 890 GTTTATGTTGCTTACCTCC 0 0 1 0 0 0 1.05 0 891 GTAGATAAAATATTGGCG 1 0 0 0 1.02 0 0 0 892 GGCGGGGACGACGTCAG 0 0 0 1 0 0 0 0.81 893 GGCGGCGTCGCGGCGGGTC 0 1 0 0 0 0.92 0 0 894 GGAGGGGGTGAACAAAAAGAAAAA 0 0 0 1 0 0 0 0.81 895 GCTAAACCTAGCCCCAAACCCACT 0 0 0 1 0 0 0 0.81 CCACA 896 CTGGATAGCGCACTTCGTT 0 0 0 1 0 0 0 0.81 897 CGGGCGAGGGGCGGACGTTCG 0 0 1 0 0 0 1.05 0 898 CGGACCTATACCGGA 1 0 0 0 1.02 0 0 0 899 CCCCGGGTTCAATCCCCGGCACCT 0 0 1 0 0 0 1.05 0 CCACCA 900 CCCCCCACAACCGCGAA 0 1 0 0 0 0.92 0 0 901 CCCAGCATCTCCTGTGTTTA 0 1 0 0 0 0.92 0 0 902 CCCACGTTGGGACGCCA 1 0 0 0 1.02 0 0 0 903 ATCACGTCCGTGCCTCCA 0 1 0 0 0 0.92 0 0 904 ATAGCAATGTCAGCAGTACCT 0 0 1 0 0 0 1.05 0 905 ACCCTGCTCGCTGCGCCA 9 17 4 7 9.18 15.6 4.21 5.69 906 TCCCACCCAGGGACGCCA 8 2 1 0 8.16 1.83 1.05 0 907 TCGTAGGCACATCAATA 0 0 0 4 0 0 0 3.25 908 CCCCCACAACCGCGTA 0 4 0 0 0 3.67 0 0 909 ACCCCGTCCGTGCCTCCA 2 1 1 0 2.04 0.92 1.05 0 910 AAAAAAGACACCCCCCACA 0 0 0 3 0 0 0 2.44 911 TGTCAGTTTGTTAACCCAA 0 0 0 2 0 0 0 1 .63 912 TCCCTGTGGTCTAGTGGTTAGG 0 0 1 1 0 0 1.05 0.81 913 GGGGGGGTAAAAAAA 0 0 0 1 0 0 0 0.81 914 GGGGGGGGAAAAAAAA 0 0 0 1 0 0 0 0.81 915 CGGGCCCGGGTCTTCCC 1 1 0 0 1.02 0.92 0 0 916 CCGCCCCCCGTTCCCCCCA 0 2 0 0 0 1.83 0 0 917 ACCCCCGGCTCCTCCACCA 0 1 0 1 0 0.92 0 0.81 918 TTTGGTGGAAATTTTTTGA 0 0 0 1 0 0 0 0.81 919 TGTCAGTTTGTTATACCAA 0 0 0 1 0 0 0 0.81 920 TGTCAGTTTGTAATTATCCCAA 0 0 0 1 0 0 0 0.81 921 TGTCAATTTTTAACCCAA 0 0 0 1 0 0 0 0.81 922 TGCTAGGGTAAAAAAAAAA 0 0 0 1 0 0 0 0.81 923 TGCAACTCCAAATAAAAGTACCA 0 0 0 1 0 0 0 0.81 924 TGAGGTAACGGGGAATTA 0 0 0 1 0 0 0 0.81 925 TCCTCGGCATCTCCACCA 0 0 1 0 0 0 1.05 0 926 TCATATGAAGTCACCCTAGCCATC 0 0 1 0 0 0 1.05 0 927 TCAGTTTGTTTATTAACCCAA 0 0 0 1 0 0 0 0.81 928 TCAGCGTGTCTTTGCCCT 1 0 0 0 1.02 0 0 0 929 TCACTGGTGGTCTAGTGGT 0 1 0 0 0 0.92 0 0 930 TCACAATGCTGCCACCA 1 0 0 0 1.02 0 0 0 931 TAGTTGTTAATTAACCCAA 0 0 0 1 0 0 0 0.81 932 TAGTCCTCATCGCCCTCC 0 1 0 0 0 0.92 0 0 933 TAAAGTGCTTATAGTGCGGGTAA 0 0 0 1 0 0 0 0.81 934 GTCCCACCAGAGTCGCCA 0 0 1 0 0 0 1.05 0 935 GGGGGAGGGGCCAAAAAAA 0 0 0 1 0 0 0 0.81 936 GGGACGCCGCGGTGTCG 1 0 0 0 1.02 0 0 0 937 GGGAATACCGGGTGCTTTAGGCTT 0 1 0 0 0 0.92 0 0 938 GGAAGAAGGTGGTGGTATA 0 0 0 1 0 0 0 0.81 939 GCGGTGAAATGCGTA 1 0 0 0 1.02 0 0 0 940 GCGGGGAAGGTGGCAAA 0 0 0 1 0 0 0 0.81 941 GCGACGACCTCGCGCCCACCTGG 0 1 0 0 0 0.92 0 0 TCA 942 GCCACCCGATACTGCTGT 0 1 0 0 0 0.92 0 0 943 GATGTATGCTTTGTTTCTGTT 0 0 1 0 0 0 1.05 0 944 GAGGGGGATTTAGAAAAAAA 0 0 0 1 0 0 0 0.81 945 GAAGGAAAGTTCTATAGT 0 0 0 1 0 0 0 0.81 946 GAAGCGGCTCTCTTATTT 0 0 0 1 0 0 0 0.81 947 GAACGAGACTCTGGCATGCTGA 0 0 1 0 0 0 1.05 0 948 CTGGTAGGCCCATCAAT 0 0 0 1 0 0 0 0.81 949 CGGGGCCGATCGCGCGC 0 1 0 0 0 0.92 0 0 950 CGGCCCCGGGTTCCTCCC 1 0 0 0 1.02 0 0 0 951 CGAGCCCGGTTAGTA 1 0 0 0 1.02 0 0 0 952 CGACTCTTAGCGGTGGA 0 0 1 0 0 0 1.05 0 953 CGAATCCCACTTCTGACACCA 0 0 0 1 0 0 0 0.81 954 CGAAAGGGAATCGGGTC 1 0 0 0 1.02 0 0 0 955 CCTTAGGTCGCTGGTAAA 0 0 1 0 0 0 1.05 0 956 CCGTGCGAGAATACCA 0 1 0 0 0 0.92 0 0 957 CCGGTCTCTCAAGCGGCC 1 0 0 0 1.02 0 0 0 958 CCCGGCCCTCGCGCGTCC 0 1 0 0 0 0.92 0 0 959 CCCCGGCATTTCCACCA 0 0 1 0 0 0 1.05 0 960 CCCCCCCGGCTCCTCCACCA 0 0 0 1 0 0 0 0.81 961 CCCCCCACAACCGCTA 0 1 0 0 0 0.92 0 0 962 CCCAAGTATTGACTCACCC 0 1 0 0 0 0.92 0 0 963 CCAGTAAGCGCGAGTC 1 0 0 0 1.02 0 0 0 964 CCAAAGAAAGCACGTAGAG 0 0 0 1 0 0 0 0.81 965 CATGTTTAACGGCCGCGGT 0 0 1 0 0 0 1.05 0 966 CAGTTTGTAATTAACCCAA 0 0 0 1 0 0 0 0.81 967 CAGGAACGGCGCACCA 0 0 1 0 0 0 1.05 0 968 CAGAACCCTCTAAATCCCC 0 0 1 0 0 0 1.05 0 969 CACCCGGCTGTGTGCACATGTGT 1 0 0 0 1.02 0 0 0 970 CAATTGGACCAATCTATC 0 0 1 0 0 0 1.05 0 971 ATTCCTGTACTGCGATA 0 0 0 1 0 0 0 0.81 972 ATCCCTGCGGCGTCTCCA 0 0 0 1 0 0 0 0.81 973 ATCCCACCGCTGCCATCA 0 1 0 0 0 0.92 0 0 974 AGTCAATAGAAGCCGGCGTA 0 0 1 0 0 0 1.05 0 975 AGGTTCGTTTGTAAAAA 0 0 0 1 0 0 0 0.81 976 AGGTCCTGGGTTTAAGTGT 0 0 0 1 0 0 0 0.81 977 AGGGGGAAGTTCTATAGTC 0 0 0 1 0 0 0 0.81 978 AGGCTGTGATGCTCTCNTGAGCCC 0 0 1 0 0 0 1.05 0 T 979 AGCCCCTCTCCGGCCCTTA 0 1 0 0 0 0.92 0 0 980 ACTACCACCTACCTCCC 1 0 0 0 1.02 0 0 0 981 ACGCCCTTCCCCCCCTTCTTT 0 0 0 1 0 0 0 0.81 982 ACCCCACTCCTGGTGCAC 1 0 0 0 1.02 0 0 0 983 ACCACCTGATCCCTTCCC 1 0 0 0 1.02 0 0 0 984 ACAGCTAAGCACCCACCA 0 0 1 0 0 0 1.05 0 985 ACACATGTTTAACGGCC 1 0 0 0 1.02 0 0 0 986 AATTAGGGACCTGTATG 0 0 1 0 0 0 1.05 0 987 AATGGCCCATTTGGGCAAACA 0 0 0 1 0 0 0 0.81 988 AAAGCGGCTGTGCAAACA 0 0 0 1 0 0 0 0.81 989 TCGACTCCTGGCTGGCTCGCCA 0 2 2 1 0 1.83 2.11 0.81 990 TCCCCGGCATCTCCACCAA 0 1 2 0 0 0.92 2.11 0 991 GCGGTGGATCACTCGGCTCGTGC GT 0 0 0 3 0 0 0 2.44 992 CCGGGTGTTGTAGA 2 0 0 0 2.04 0 0 0 993 TGTAGCGTGGCCGAGCGGT 0 1 0 0 0 0.92 0 0 994 TGGGGCGACCTCGGAGCAG 0 0 1 0 0 0 1.05 0 995 TGGCGTCCTAAGCCAGGGATTGTG 0 0 0 1 0 0 0 0.81 GGT 996 TGGCAGGGGAGATACCATGATTT 0 0 1 0 0 0 1.05 0 997 TCTGATCAGGGTGAGCATC 0 1 0 0 0 0.92 0 0 998 TCGTAGGCACCATCCAT 0 0 0 1 0 0 0 0.81 999 GGGAAACGGGGCGCGGCTG 0 1 0 0 0 0.92 0 0 1000 CTACTCCTGCTCGCATCTGCTATA 0 0 1 0 0 0 1.05 0 1001 CGGGTGGGTTTTTACCGG 1 0 0 0 1.02 0 0 0 1002 CGAGGAATTCCCAGTAAG 0 0 1 0 0 0 1.05 0 1003 CGAACGCACTTGCGGCCCC 1 0 0 0 1.02 0 0 0 1004 CCCCGCGCGGGTTCGAATC 1 0 0 0 1.02 0 0 0 1005 AGGGGTATGATTCCCGCTT 0 0 0 1 0 0 0 0.81 1006 CGGGGCCACGCGCGCGTC 3 6 0 0 3.06 5.5 0 0 1007 TGGCGCTGCGGGATGAAC 0 3 1 0 0 2.75 1.05 0 1008 CCCCCCACTGCTAAATTTGACTGG 0 0 2 2 0 0 2.11 1.63 CTT 1009 TAAAGGTTCGTTTGTAAAA 0 0 0 3 0 0 0 2.44 1010 CGGGGCCGAGGGAGCGA 1 2 0 0 1.02 1.83 0 0 1011 GGGTTAGGCCTCTTTT 0 1 1 0 0 0.92 1.05 0 1012 CTGCGGAAGGATCATTA 1 0 1 0 1.02 0 1.05 0 1013 CCCTACCCCCCCGG 0 2 0 0 0 1.83 0 0 1014 CCCGCCGGGTCCGCCC 2 0 0 0 2.04 0 0 0 1015 CCCCGCGCCCTCTCTCTCTC 0 2 0 0 0 1.83 0 0 1016 CAGGCCTCCCTGGAATC 2 0 0 0 2.04 0 0 0 1017 AGTCCCACCCGGGGTACCA 0 0 0 2 0 0 0 1.63 1018 TTGACACGCCCCAGTGCCCTGT 1 0 0 0 1.02 0 0 0 1019 TGGGAGCGGGCGGGCGGTC 0 1 0 0 0 0.92 0 0 1020 TGGCGTGGAGCCGGGCGT 0 1 0 0 0 0.92 0 0 1021 TGGAGGTCCGTAGCGGT 1 0 0 0 1.02 0 0 0 1022 TGAAGAAGGTCTCGAACA 0 0 0 1 0 0 0 0.81 1023 TCTCGCCGGGGCTTCCA 0 1 0 0 0 0.92 0 0 1024 TCGTAGCACCATCAATAA 0 0 0 1 0 0 0 0.81 1025 TCCGGGTCCCCCCTCCA 0 1 0 0 0 0.92 0 0 1026 TCCGGGGCTGCACGCGCGCT 0 1 0 0 0 0.92 0 0 1027 TCCGGCCGTGTCGGT 1 0 0 0 1 .02 0 0 0 1028 TCCCTGTCCTCCAGGAGT 0 0 0 1 0 0 0 0.81 1029 TCCCCTCCTCGTCGCCA 1 0 0 0 1.02 0 0 0 1030 TCCCAGGTAGTCTAGTGGT 1 0 0 0 1 .02 0 0 0 1031 TATTCATTTATCCCCAGCCTAT 0 1 0 0 0 0.92 0 0 1032 TAGTTGTTATAACCCAA 0 0 0 1 0 0 0 0.81 1033 TAGATCACCCCCTCCCC 0 1 0 0 0 0.92 0 0 1034 TACCGGCACCTGGCGCC 1 0 0 0 1.02 0 0 0 1035 GTATAGGGGCGAAAGAC 0 0 1 0 0 0 1.05 0 1036 GTAGCTGGTTCCCTCCGAA 0 0 0 1 0 0 0 0.81 1037 GGTAAGAAGCCCGGCTC 0 0 1 0 0 0 1.05 0 1038 GGGGGGGTTTAAAAAAAAA 0 0 0 1 0 0 0 0.81 1039 GGGGCGCACTACCGGCC 1 0 0 0 1.02 0 0 0 1040 GGGAGAGGCTGTCGCTGCG 0 0 0 1 0 0 0 0.81 1041 GGCGGGTGAAGCGGCG 0 1 0 0 0 0.92 0 0 1042 GCGGTTCCGGCGGCGTC 0 1 0 0 0 0.92 0 0 1043 GCGGGGCGCCTAGGCCTGGTTTG 1 0 0 0 1.02 0 0 0 T 1044 GCGGCGGTCGGCGGGCGGCGGG 1 0 0 0 1.02 0 0 0 1045 GAGGGGGGGGGTGGGGGGGGA 0 0 0 1 0 0 0 0.81 1046 CTGTCGGCCACCATCAT 0 0 0 1 0 0 0 0.81 1047 CTGCAACTCGACCCCA 0 1 0 0 0 0.92 0 0 1048 CTCCTCTCCCCGCCCGCCG 0 0 1 0 0 0 1.05 0 1049 CTCAAAGATTAAGCCATGCATGTCT 0 0 1 0 0 0 1.05 0 A 1050 CTACGCCGCGACGAG 1 0 0 0 1.02 0 0 0 1051 CGGGTGACGGGGAATCAGGGTT 1 0 0 0 1.02 0 0 0 1052 CGGGCAGCTTCCGGGA 0 0 0 1 0 0 0 0.81 1053 CGGGAGGCCCGGGTCCTG 1 0 0 0 1.02 0 0 0 1054 CGGCCCCGCATCCTCCC 1 0 0 0 1.02 0 0 0 1055 CGCGGGTAAACGGCGGGAGTAAC 0 0 1 0 0 0 1.05 0 TAT 1056 CGCCCCCCGTTCCCCCCTCC 0 1 0 0 0 0.92 0 0 1057 CGAGCGGAAACACCA 1 0 0 0 1.02 0 0 0 1058 CGAACCCGGCACCGC 1 0 0 0 1.02 0 0 0 1059 CCTCGGGCCGATCGCAC 0 0 1 0 0 0 1.05 0 1060 CCTATATATCTTACCA 0 1 0 0 0 0.92 0 0 1061 CCGTGGCGGCGACGACC 0 1 0 0 0 0.92 0 0 1062 CCGGGTTCCGGCACCA 1 0 0 0 1.02 0 0 0 1063 CCGCGAGGGGGGCCCG 1 0 0 0 1.02 0 0 0 1064 CCGCCTCACGGGACCA 1 0 0 0 1.02 0 0 0 1065 CCGCCCGTCCCCGCCCCTTG 0 1 0 0 0 0.92 0 0 1066 CCCGGGGCCGCGGTTCCG 1 0 0 0 1.02 0 0 0 1067 CCCGAGCCGCCTGGAT 0 1 0 0 0 0.92 0 0 1068 CCCGACGGCCGAACT 0 1 0 0 0 0.92 0 0 1069 CCCCGGGGAGCCCGGCGGG 1 0 0 0 1.02 0 0 0 1070 CCCCCTCGCGGCCCTCCCC 0 1 0 0 0 0.92 0 0 1071 CCCCCCGTGGCGGCGAC 0 1 0 0 0 0.92 0 0 1072 CCACCCAGGGCACGCCA 1 0 0 0 1.02 0 0 0 1073 CACGGGTGACGGGGAA 1 0 0 0 1.02 0 0 0 1074 ATGGGGAGGAAAAAAAAAAAAAA 0 0 0 1 0 0 0 0.81 1075 ATCCCACCGCTGCCCCCA 0 0 0 1 0 0 0 0.81 1076 ATCACGTCGGTCACCA 0 0 0 1 0 0 0 0.81 1077 ACGGGAAACCTCACCCGGCCCGG 0 0 1 0 0 0 1.05 0 1078 ACAGAGGCTTACGACCCCTTATTT 0 0 1 0 0 0 1.05 0 1079 AAAAAGGCATAATTAAACTT 0 0 1 0 0 0 1.05 0

Interestingly, several of these non-annotated sequences (i.e. CU-5004, CU-5021, CU-6030, CU-6069) were cloned multiple times and showed differential expression across libraries, suggesting they may represent short-RNAs with characteristics distinct from those currently recognized in “classic” miRNAs.

In conclusion, the generation of short-RNA libraries from normal and neoplastic B cells led to the identification of 401 bona fide miRNAs as well as other short-RNA species of unknown function.

Abundance and Evolutionary Conservation

Previously reported miRNAs appeared to be more abundant than newly discovered miRNAs (FIG. 13A). Approximately 21% of previously reported miRNAs appeared in the libraries as single occurrences compared to 57% of the newly discovered miRNAs. Approximately 42% of known miRNAs were expressed at all stages of mature B cell development, while newly identified miRNAs showed a more distinct stage-specificity (FIG. 13B), consistent with the notion that presently known miRNAs are mostly representative of ubiquitously expressed miRNAs.

Regardless of their novelty, stage-specific miRNAs were observed with frequencies (defined as the fraction of the total pool of cloned miRNAs represented by a given miRNA) ranging between 0.03 and 0.6% of their respective libraries. The most abundant GC-associated miRNAs showed restricted expression in GC B cells and, if unaffected by transformation, in Ramos cells. However, in naïve and memory B cell libraries only the rarest miRNAs were truly exclusive in their expression and most of the non-GC-specific miRNAs were expressed in both naïve and memory cells albeit at different levels.

In order to investigate the presence of orthologous miRNA in other mammalian species, we relied on UCSC-provided Blastz pairwise alignments between human and target species and investigated conservation using two complementary methods, detailed in Supplementary Methods. The analysis was performed on the complete set of miRNAs deposited in the miRBase database and on the miRNAs (known and new) represented in the B cell libraries. Alignments of the human mature miRNA to its target species were required to have either perfect conservation of the entire mature miRNA sequence (FIG. 13C) or conservation of seeds composed of seven bases starting from the second position of the human mature sequence followed by conservation of 3 bases starting from the 12th, 13th or 14th position as suggested by²¹. The majority of miRBase miRNAs showed conservation across mammalian genomes, from primates to rodents. Conservation frequency mimicked known phylogenetic distances to human, with the highest conservation in chimp and lowest in rat. The conservation frequencies of known and new miRNAs in B cells were similar in chimp (Pan troglodytes) and monkey (Macacus rhesus), especially when conservation requirements were restricted to the seed region of miRNAs. However, conservation frequencies in dog, mouse and rat were significantly divergent, with known miRNAs more likely to exhibit conservation than new candidate miRNAs (FIG. 13C). In summary, new miRNAs expressed at specific stages of B cell differentiation were less abundant and showed a lower level of conservation across species.

Validation of Newly Discovered miRNA

The newly identified miRNAs were investigated by Northern Blot analysis in order to validate their existence in vivo. Northern Blot analyses were performed using B cell lines and cells isolated from tonsil tissue obtained from multiple donors. Among 23 candidate miRNAs that have been cloned in any of the four libraries with 1-100 occurrences, 13 were detectable by Northern Blot (FIG. 14A). Detection of several miRNAs represented by low number of occurrences in the libraries was successful only upon enrichment for the short-RNA fraction, suggesting that low-abundance miRNA could be below the level of detection by Northern blotting. Overall, approximately 55% of the newly cloned and computationally validated miRNAs were detectable by Northern Blot.

Transcriptional and Post-Transcriptional Regulation

Most newly identified miRNAs showed a long abundant transcript (>150 nt) that might correspond to the primary miRNA transcript and a second transcript (˜60-80 nt) consistent with the precursor miRNA. As shown in FIG. 14B (top panel), the precursor miRNA and the correspondent mature miRNA may be produced in some cell type but not in others, suggesting transcriptional regulation. Conversely in some cases the miRNA precursor species may be present in cell types that lack expression of the mature form (FIG. 14B, bottom panel) suggesting the existence of a second level of regulation targeting the Dicer-dependent pre-miRNA processing²²⁻²⁴.

Distinct miRNA Signatures in Normal B Cells

miRNA representation in the four constructed libraries suggested differential expression of miRNAs during B cell differentiation and GC transit (FIG. 13B). The correlation among miRNA profiles from normal B cells and Ramos cell line was further investigated by hierarchical clustering using miRNA frequencies (defined as the fraction of the total pool of cloned miRNAs represented by a given miRNA in a library) obtained from the cloning data (FIG. 15A). Naïve and memory B cells appeared similar, sharing a large fraction of the most abundant miRNA. Conversely, centroblasts and Ramos cells showed more distinct miRNA profiles with a sizeable fraction of abundant miRNA being specifically expressed in each library.

We also performed miRNA expression profiling of centroblasts, naïve and memory B cells (six donors/each) using a microarray representative of 723 known human miRNAs (miRBase v.10.1). Each B cell population showed a distinct miRNA expression profile. Consistent with the cloning data (FIGS. 13B and 15A) GC B cells appeared to be quite distinct from naïve and memory B cells which instead shared expression of a large fraction of miRNAs (FIG. 15A). The main differences between naïve and memory B cells resided in the level of miRNA expression. The expression of several miRNAs was tested by qRT-PCR analysis which confirmed that the microarray data were accurate for the relative quantification.

miRNA Signatures can Identify Subtypes of B Cell Malignancies

The miRNA library generated from Ramos BL cell line demonstrated that tumors can display specific miRNA expression signatures. To investigate whether these signatures can identify subtypes of B cell malignancies, miRNA expression profiling was performed using the same microarray platform on a panel of GC-derived malignancies including BL (8), DLBCL (16) and FL (10). Unsupervised clustering analysis of the tumor miRNA profiles was able to identify three major clusters enriched for samples belonging to each malignant phenotype (FIG. 16). These tumors can be discriminated as well by gene expression profiling however it requires the use of a higher number of features. These results show that tumors deriving from the same stage of B cell differentiation acquire distinct miRNA expression profiles as consequence of malignant transformation.

Discussion

The combination of cloning procedures and computational tools led us to the identification of a large fraction of known as well as newly discovered miRNA expressed during B cell differentiation. These findings have general implications for the understanding of the total miRNA content of the human genome as well as for future studies on the role of miRNAs in B cell differentiation, function and lymphomagenesis.

The discovery of >250 new miRNAs and of their tissue-specific pattern of expression are in sharp contrast with previous reports that suggested, based on the discovery of only 12 new human miRNA⁷ from an analysis of 26 different organ systems and cell types, that most miRNAs are ubiquitously expressed and that most miRNAs have already been identified. These discordant results and conclusions may be partially due to the significantly higher number of clones per library sequenced in this study (3500 versus 1300 on average in⁷) which allowed the detection of low abundant miRNA species and to the criteria applied in the miRNA prediction (see Supplementary Methods).

The relatively lower degree of evolutionary conservation of tissue-specific miRNAs (FIG. 13C) may have prevented the cross-species identification of miRNAs using murine libraries^(18,25). Consistent with these observations, a recent report on short-RNAs in mouse embryonic stem cells discovered new Dicer-dependent miRNAs characterized by both low abundance and low level of conservation²⁶. Thus, a large number of low-abundance, recently evolved, tissue-specific miRNAs remain to be discovered.

Two categories of short-RNAs were identified that could not be annotated as bona fide miRNAs. The first category is represented by those short-RNAs that could not be accurately mapped to the genome. Considering that a fraction of these RNAs were cloned multiple times and showed a stage-specific behavior, such short-RNAs do actually exist and that the lack of a match to the human genome may be due to polymorphisms, editing and other post-transcriptional modifications or to an incomplete/inaccurate sequencing of the corresponding genomic regions. The second category is represented by short-RNAs for which classic pre-miRNA structures could not be identified in the genome and no similarity to other non-coding RNA was found in the available databases. These short-RNAs may either be miRNA for which RNA secondary structure prediction algorithms failed to predict the correct hairpin structure or may represent new miRNA species of presently unknown mechanism of generation or other not yet described types of short-RNAs.

The stage specific expression of various miRNAs, especially in GC B cells, suggests highly specialized regulatory functions in B cell biology. The role of miRNAs that show cell type-specific functions in lymphocytes has just begun to be elucidated^(8-10,27). The miRNAs specifically associated to GC or non-GC B cells by either cloning or miRNA expression profiling (FIG. 15) have not been previously reported in B cell differentiation with the exception of miR-150¹⁰. The miR-17-92 cluster, previously reported as a potential oncogene¹¹, was found over-expressed in Ramos cell line compared to GC B cells possibly as a consequence of the transformation process.

Specificity in mature miRNA expression may be regulated at the transcriptional as well as at the post-transcriptional, i.e. pre-miRNA processing, level. Pre-miRNA accumulation in absence of a mature miRNA can occur in a cell type-restricted manner, suggesting the presence of a regulation mechanism at the pre-miRNA processing step. Both regulatory mechanisms may act during normal differentiation and may also be dysregulated during transformation as a consequence of genetic or epigenetic alterations²²⁻²⁴. The expanded B cell miRNome described here can be used to identify specific differences in miRNA expression in normal versus lymphoma cells that can guide searches for these tumor alterations.

miRNA expression profile differences between GC and non-GC B cells resembled those observed by expression profiling of coding genes²⁸, consistent with the previous observation that miRNA profiling may be equally or more informative in discriminating cell phenotypes²⁹. miRNA expression profiling, especially if including new B-cell specific miRNAs, may be useful in the differential diagnosis of lymphoid malignancies.

Materials and Methods

Generation of Short-RNA Libraries

Purification of naïve, memory and GC B cells was performed as previously reported²⁸ using magnetic cell sorting of mononucleated cells obtained from human tonsils. Total RNA was purified using the Trizol Reagent (Invitrogen) following the manufacturer's indications. The short-RNA libraries were generated using an established protocol described in detail in³⁰. Briefly, total RNA was separated on 15% polyacrylamide gel and the fragment corresponding to 18-28 nucleotides length was excised. The purified small RNAs were linked to adaptor oligonucleotides and gel purified. Upon adaptor ligation, RNA was reverse transcribed and cDNA was PCR amplified and cloned into pCR2.1-TOPO vector (Invitrogen). Sequencing was performed on colony PCR amplicons.

Computational Identification of Mature and Precursor MiRNAs

The bioinformatics miRNA analysis pipeline (FIG. 18) includes: (a) identification of short-RNAs from each library, (b) identification of exact and partial matches of the short-RNA sequences to the human genome, (c) testing each short-RNA genomic region for compatibility with hairpin secondary structures, (d) clustering genomic regions to predict mature miRNAs, (e) annotating and filtering short-RNAs and miRNAs candidates, (f) estimation of predicted miRNA frequencies in the libraries and (g) clustering short-RNAs that do not support miRNA candidates. The details are reported in the Supplementary Methods.

Orthology Analysis

The identification of putative orthologous sequences of known and predicted precursor and mature human miRNAs in chimp (panTro2), monkey (rheMac2), dog (canFam2) mouse (mm8) and rat (rn4) was performed using UCSC-provided Blastz³¹ pairwise alignments between human and target species. The details are reported in the Supplementary Methods.

miRNA Expression Profiling

The miRNA expression profiles were generated using the Human miRNA Microarray kit (Agilent Technologies) that allows detection of 723 known human (miRBase v.10.1) and 76 human viral miRNAs following the manufacturer's indications. Analysis of raw data was performed using the Feature Extraction Software 9.5.3.1 (Agilent Technologies). The dendrograms (FIG. 15) were generated using a hierarchical clustering algorithm based on the average-linkage method³²′³³ and Spearman's correlation as provided by the geWorkbench platform (http://www.geworkbench.org).

Northern Blot

Total RNA and small RNA fractions were purified using the Trizol Reagent (Invitrogen) and the PureLink miRNA Isolation Kit (Invitrogen), respectively, following the manufacturer's indications. Electrophoresis was performed on 15% denaturing polyacrylamide gel and then RNA was transferred on Duralon UV membrane (Stratagene) using a semidry transfer apparatus. Pre-hybridization and hybridization were performed in 5×SSC, 20 mM Na₂HPO₄ pH 7.2, 7% SDS, 3×Denhardt's Solution. Oligonucleotide probes were [γ³²P]-ATP labeled by polynucleotide kinase (Fermentas). The list of oligonucleotides is reported in Table 5.

TABLE 5 Listing of Oligonucleotide Probe Sequences Mature miRNA SEQ SEQ ID ID sequence (5′-3′) ID NO: Probe sequence (5′-3′) NO: CU-1303 ATCCCACTTCTGACACC 237 TGGTGTCAGAAGTGGGAT 1080 A CU-1403 GCATTGGTGGTTCAGTG 391 TCTACCACTGAACCACCAATGC 1081 GTAGA CU-1253 GTGAAGCGTTCCATATT 281 AAAAATATGGAACGCTTCAC 1082 TTT CU-1513 GCGGGTGATGCGAACT 381 GCTCAGACTCCAGTTCGCATCACC 1083 GGAGTCTGAGC CGC CU-1173 ATCCCACTCCTGACACC 145 TGGTGTCAGGAGTGGGAT 1084 A CU-1276 TCGATTCCCGGCCAATG 236 TGGTGCATTGGCCGGGAATCGA 1085 CACCA CU-1368 GACGAGGTGGCCGAGT 382 AACCACTCGGCCACCTCGTC 1086 GG CU-1254 TCCCCGGCACCTCCACC 233 TGGTGGAGGTGCCGGGGA 1087 A CU-1137 GCTAAGGAAGTCCTGTG 132 AAAACTGAGCACAGGACTTCCTTA 1088 CTCAGTTTT GC CU-1153 CCCCCCACTGCTAAATT 142 AAGCCAGTCAAATTTAGCAGTGGG 1089 TGACTGGCTT GGG CU-1241 AGTCCCATCTGGGTCGC 243 TGGCGACCCAGATGGGACT 1090 CA CU-1351 CCTTCCTTGGATGTCTG 316 CTCACTCAGACATCCAAGGAAGG 1091 AGTGAG CU-1142 TCGATTCCCGGCCCATG 149 TGGTGCATGGGCCGGGAATCGA 1092 CACCA

After over-night hybridization, membranes were washed at the same temperature in 3×SSC, 25 mM NaH₂PO₄ pH 7.5, 5% SDS, 10×Denhardt's Solution for 15-20′ and in 1×SSC, 1% SDS for 5′. Images were obtained by exposure to phosphoimager cassette and acquisition by Storm 840 Phosphoimager (Molecular Dynamics) and by film exposure for approximately 2 weeks.

REFERENCES

-   1. Bartel, D. P. MicroRNAs: genomics, biogenesis, mechanism, and     function. Cell 116, 281-97 (2004). -   2. Kim, V. N. MicroRNA biogenesis: coordinated cropping and dicing.     Nat Rev Mol Cell Biol 6, 376-85 (2005). -   3. Griffiths-Jones, S. miRBase: the microRNA sequence database.     Methods Mol Biol 342, 129-38 (2006). -   4. Griffiths-Jones, S., Grocock, R. J., van Dongen, S., Bateman, A.     & Enright, A. J. miRBase: microRNA sequences, targets and gene     nomenclature. Nucleic Acids Res 34, D140-4 (2006). -   5. Miranda, K. C. et al. A pattern-based method for the     identification of MicroRNA binding sites and their corresponding     heteroduplexes. Cell 126, 1203-17 (2006). -   6. Bentwich, I. et al. Identification of hundreds of conserved and     nonconserved human microRNAs. Nat Genet. 37, 766-70 (2005). -   7. Landgraf, P. et al. A mammalian microRNA expression atlas based     on small RNA library sequencing. Cell 129, 1401-14 (2007). -   8. That, T. H. et al. Regulation of the germinal center response by     microRNA-155. Science 316, 604-8 (2007). -   9. Rodriguez, A. et al. Requirement of bic/microRNA-155 for normal     immune function. Science 316, 608-11 (2007). -   10. Xiao, C. et al. MiR-150 Controls B Cell Differentiation by     Targeting the Transcription Factor c-Myb. Cell 131, 146-59 (2007). -   11. He, L. et al. A microRNA polycistron as a potential human     oncogene. Nature 435, 828-33 (2005). -   12. Calin, G. A. et al. Frequent deletions and down-regulation of     micro-RNA genes miR15 and miR16 at 13q14 in chronic lymphocytic     leukemia. Proc Nail Acad Sci USA 99, 15524-9 (2002). -   13. Calin, G. A. et al. A MicroRNA signature associated with     prognosis and progression in chronic lymphocytic leukemia. N Engl J     Med 353, 1793-801 (2005). -   14. Kuppers, R. & Dalla-Favera, R. Mechanisms of chromosomal     translocations in B cell lymphomas. Oncogene 20, 5580-94 (2001). -   15. Klein, U. & Dalla-Favera, R. Germinal centres: role in B-cell     physiology and malignancy. Nat Rev Immunol 8, 22-33 (2008). -   16. Harrell, F. E. Regression modeling strategies: with applications     to linear models, logistic regression, and survival analysis     (Springer, N.Y., 2001). -   17. Hinkley, A. C. D. a. D. V. Bootstrap Methods and their     Applications (Cambridge University Press, New York, 1997). -   18. Neilson, J. R., Zheng, G. X., Burge, C. B. & Sharp, P. A.     Dynamic regulation of miRNA expression in ordered stages of cellular     development. Genes Dev 21, 578-89 (2007). -   19. Kawahara, Y. et al. Redirection of silencing targets by     adenosine-to-inosine editing of miRNAs. Science 315, 1137-40 (2007). -   20. Luciano, D. J., Mirsky, H., Vendetti, N. J. & Maas, S. RNA     editing of a miRNA precursor. Rna 10, 1174-7 (2004). -   21. Grimson, A. et al. MicroRNA targeting specificity in mammals:     determinants beyond seed pairing. Mol Cell 27, 91-105 (2007). -   22. Thomson, J. M. et al. Extensive post-transcriptional regulation     of microRNAs and its implications for cancer. Genes Dev 20, 2202-7     (2006). -   23. Michael, M. Z., S M, O. C., van Holst Pellekaan, N. G.,     Young, G. P. & James, R. J. Reduced accumulation of specific     microRNAs in colorectal neoplasia. Mol Cancer Res 1, 882-91 (2003). -   24. Lee, E. J. et al. Systematic evaluation of microRNA processing     patterns in tissues, cell lines, and tumors. Rna 14, 35-42 (2007). -   25. Chen, C. Z., Li, L., Lodish, H. F. & Bartel, D. P. MicroRNAs     modulate hematopoietic lineage differentiation. Science 303, 83-6     (2004). -   26. Calabrese, J. M., Seila, A. C., Yeo, G. W. & Sharp, P. A. RNA     sequence analysis defines Dicer's role in mouse embryonic stem     cells. Proc Natl Acad Sci USA 104, 18097-102 (2007). -   27. Li, Q. J. et al. miR-181a is an intrinsic modulator of T cell     sensitivity and selection. Cell 129, 147-61 (2007). -   28. Klein, U. et al. Transcriptional analysis of the B cell germinal     center reaction. Proc Natl Acad Sci USA 100, 2639-44 (2003). -   29. Lu, J. et al. MicroRNA expression profiles classify human     cancers. Nature 435, 834-8 (2005). -   30. Lau, N. C., Lim, L. P., Weinstein, E. G. & Bartel, D. P. An     abundant class of tiny RNAs with probable regulatory roles in     Caenorhabditis elegans. Science 294, 858-62 (2001). -   31. Schwartz, S. et al. Human-mouse alignments with BLASTZ. Genome     Res 13, 103-7 (2003). -   32. Eisen, M. B., Spellman, P. T., Brown, P. O. & Botstein, D.     Cluster analysis and display of genome-wide expression patterns.     Proc Natl Acad Sci USA 95, 14863-8 (1998). -   33. Hartigan, J. A. Clustering Algorithms (Wiley, New York, 1975).

Supplementary Methods

Bioinformatics Analysis of Short-RNA Libraries

The bioinformatics microRNA (miRNA) analysis pipeline includes (a) identification of short-RNAs from each library, (b) identification of exact and partial matches of the short-RNA sequences to the human genome, (c) testing each short-RNA genomic region for compatibility with hairpin secondary structures, (d) clustering genomic regions to predict mature miRNAs, (e) annotating and filtering short-RNAs and miRNAs candidates, (f) estimation of predicted miRNA frequencies in the libraries, (g) clustering short-RNAs that do not support miRNAs candidates.

a. Identification of short-RNAs from cloned cDNA sequences: Short-RNA sequences of length 15-30 bp were recovered from within cloned cDNA sequences using 8 bp adaptor oligonucleotides as oriented markers. An exact ≧6 bp match to the suffix of the 5′ daptor oligonucleotide and the prefix of the 3′ adaptor oligonucleotide were required. All short-RNAs of length 17 to 27 nt (length range of miRNAs deposited in the miRBase database v11.0) that are bounded by adaptors were reported, and short-RNAs containing adaptor fragments were tagged as lower confidence observations. miRNA candidates supported by low confidence short-RNAs were later evaluated individually and discarded by expert decision. The remaining ones are listed here: CU-1153 is supported by 29 short-RNAs including 1 low confidence; CU-1293 and CU-1079 are supported by low confidence short-RNAs including sequence fragments that could not originate from linkers.

b. Mapping to the human genome: Each short-RNA was aligned to the human genome assembly from March 2006 (hg18) using WU-Blast. WU-Blast was ran locally optimal, with default word length 6, maximum allowed separation 2, no gaps, and no high scoring pair consistency. All WU-Blast reported matches were retrieved and mismatches marked. Only the genomic matches with the smallest number of mismatches were recorded, and we refer to them as short-RNA genomic locations.

c. Testing short-RNA genomic locations for hairpin secondary structures: Short-RNA genomic locations were tested for compatibility with hairpin secondary structures. The criteria were established upon investigation of the characteristics of mammalian miRNA precursors deposited in the miRBase database (v.11.0)^(s1,s2). Only short-RNAs that have genomic locations compatible with a hairpin structure were used to define putative miRNAs and their precursors. A short-RNA genomic location was considered if the following criteria were satisfied: i) one or more hairpin structures were predicted in the genomic region starting at most 90 bases upstream and ending at most 90 bases downstream of the short-RNA genomic location; ii) the lowest free-energy predicted secondary structure for the containing region was a hairpin with maximum fold free energy of −8 joules, which is the maximum fold free energy observed for miRBase miRNAs; 110 the short-RNA genomic location could not overlap the predicted hairpin loop, which was required to be 3-20 bp long (the range of hairpin-loop lengths observed in the miRBase database); iv) the ratio between the number of complementary base pairs and the total number of base pairs in the stem was larger than 0.645, which is the minimum ratio observed in miRBase database. We used RNAfold 1.6, a part of the ViennaRNA package (http://www.tbi.univie.ac.at/˜ivo/RNA/), with temperature set to 37° C. to predict the lowest energy secondary RNA structure for each candidate genomic sequence.

d. Prediction of mature miRNA: Short-RNA genomic locations consistent with hairpin secondary structures (smirREGs) were clustered based on genomic region overlap, and smirREG clusters were pruned, split, merged, accepted, or eliminated iteratively. Clusters were first constructed from smirREGs corresponding to: (1) regions perfectly aligned to short-RNAs; (2) regions aligned to short-RNAs with 1-mismatch, represented by an ‘A’ in the last position; and (3) regions aligned to short-RNAs with 1-mismatch, where the associated short-RNAs had no perfect matches, were not used in (1) or (2) and were 1-mismatch away from short RNAs associated with smirREGs defined in (1) or (2). These smirREGs are major contributors to each region cluster. Regions associated with perfectly matching short-RNAs and 1-mismatch short-RNAs that were not used to define smirREG clusters, but overlapped 5 or fewer such clusters were tagged as minor contributors and added to the overlapping smirREG clusters. Each cluster was pruned or divided by identifying regions corresponding to short-RNAs where more than 25% of the region is supported by no more than 50% of the observations. For each cluster, all such regions were identified and first minor then major contributors with the largest ratio of unsupported portions to total length were iteratively removed until at least 75% of every contributing region was supported by more than 50% of the observations.

One exception is represented by CU-1088 cluster where a short-RNA was included despite the fact that only 70% of its sequence contributed to the majority observation. This exception was made because this short-RNA was the only one matching a known mature miRNA (miR-320a) and it was left out by the 75% rule.

Pruned smirREGs were merged and used to construct new and possibly overlapping clusters, but minor contributors were discarded. Finally, smirREG clusters were used to define putative mature miRNAs. The mature sequence was defined as the majority nucleotide in each position supported by more than 50% of the observations, with the genomic sequence allowed to break ties. SmirREG clusters were matched based on mature sequence containment. Clusters corresponding to a short-RNA set that is fully contained in a set corresponding to a matched cluster were eliminated, and matching clusters with partial containment were merged. The process was repeated until no elimination or merging was needed. Finally, a putative precursor was identified for each smirREG cluster following the procedure described in (c) with the added restriction that no more than 5 positions in the mature sequence were allowed to dangle off of the precursor region encapsulated by complimentary base pairs. When the mature region dangled off of the precursor region (but no more than 5 bases), the precursor was extended with non complimentary bases to include the mature region.

The mature miRNA prediction was followed by the elimination of incompatible predictions. Putative miRNAs whose predicted locations overlapped loops of known miRNAs or precursors of other higher-confidence predictions that could not form mature-star pairs were eliminated. Predicted miRNAs that were entirely composed of low confidence single-observation short-RNAs that contained linker fragments were also eliminated, with the exception of CU-1293 as described in (a). Mature miRNA predictions of length shorter than 17 nt or longer than 28 nt were discarded. Candidate miRNAs that were supported by a single observation were tagged as lower confidence predictions; some of these are likely to be miRNA, but others may be degradation products of previously unannotated RNA.

e. Annotation and filtering of candidate miRNA and sRNA: Putative miRNAs and short RNAs were matched to several RNA databases (see below) via regular expression scans (for sequence databases) or genomic region containment (for databases that specify genomic regions). Databases identifying validated human mRNA, tRNA, snoRNA and yRNA were used to eliminate putative miRNA candidates with one observation and to annotate putative miRNAs with multiple observations. All putative miRNAs matching rRNAs were eliminated regardless of the number of observations because of the extreme abundance of rRNAs. Other RNA databases were used for annotation purposes only.

Precursor and mature miRNA as well as sRNA sequences were aligned to several sequence databases (see below) using the BLAST and MEGABLAST programs from NCBI. Candidate miRNA precursors showing a full match to non-coding RNAs (tRNA, rRNA, snoRNA, other nc-RNA) or to mRNA were disregarded. Predicted precursor and mature miRNAs were further classified as either “known” or “new” based on whether exact matches can be found in miRBAse database. Short-RNA sequences included in miRNA precursor, but not overlapping the mature miRNA, were considered as degradation products of miRNA precursor processing and marked as “miRNA other” (Table 6). All cloned short-RNA were annotated using the databases reported below and results are showed in Table 2.

TABLE 6 Databases used for annotation of short-RNA and miRNA. Name/Description Source Version/Date miRBASE Sanger Institute, version 11.0 http://microrna.sanger.ac.uk/sequences Human fraction of GIRI, version 12.02 REPBASE http://www.girinst.org/Repbase_Update.html Human tRNA EMBL, http://www.trna.uni-bayreuth.de, September Bayreuth Univ., Germany 2007 edition Human snoRNA The University of Queensland, Australia, September IMB, http://imb.uq.edu.au 2006 edition Human rRNA NCBI, ftp://ftp.ncbi.nlm/nih.gov, compiled Downloaded manually January 2007 Human yRNA NCBI, ftp://ftp.ncbi.nlm/nih.gov, compiled Downloaded manually January 2007 Non coding RNA Compiled manually combining resources Compiled in from NCBI, ftp://ftp.ncbi.nlm/nih.gov and October IMB http://imb.uq.edu.au 2006 using current ENTREZ and September 2006 edition of Univ. of Queensland database VECTOR databases NCBI, ftp://ftp.ncbi.nlm/nih.gov Downloaded January 2007 Human protein coding NCBI annotation for human genome, Downloaded genes and mRNA ftp://ftp.ncbi.nlm/nih.gov January 2007 mRNA dataset NCBI, ftp://ftp.ncbi.nlm/nih.gov compiled Downloaded manually using ENTRES NR database January 2007 exEID (exon subset of University of Toledo, Ohio, September BID database) http://hsc.utoledo.edu/bioinfo/eid/ 2005 (hs35p1) Human mitochondrial NCBI, ftp://ftp.ncbi.nlm/nih.gov Downloaded genome January 2007 Human EST database NCBI, ftp://ftp.ncbi.nlm/nih.gov Human viral genomes NCBI, http://www.ncbi.nlm.nih.gov, viral Compiled in genomes section March 2007 E. coli genomes NCBI, ftp://ftp.ncbi.nlm/nih.gov Downloaded August 2007 RefGene Intron UCSC, http://genome.ucsc.edu, annotation annotation track track for hg18 for hg18 RefGene Exon UCSC, http://genome.ucsc.edu, annotation annotation track track for hg18 for hg18 rnaGenes UCSC, http://genome.ucsc.edu, annotation annotation track track for hg18 for hg18 wgRNA UCSC, http://genome.ucsc.edu, annotation annotation track track for hg18 for hg18 snoRNA database EMBL, http://www-snorna.biotoul.fr/ Version 3 Genscan MIT, http://genes.mit.edu/GENSCAN.html Version 1.0 Computational tRNA UCSC, http://genome.ucsc.edu, annotation annotation track prdiction track for hg18 for hg18 piRNA The University of Queensland, Australia, September IMB, http://imb.uq.edu.au 2006 edition Morozov database Manually curated Version 1.0

f. Estimation of mature miRNA frequencies: Short-RNAs may contribute to more than one miRNA. In order to compare observation frequencies of predicted miRNAs we normalized the contribution of each supporting short-RNA to its associated predicted miRNA in each library. Short-RNAs supporting a single miRNA prediction were not affected, but the level of support of short-RNAs associated with several miRNAs was prorated. The normalization procedure was performed iteratively. First, for each library, we assigned an observation frequency to each miRNA, taken to be the sum of the library-specific observations across all of its supporting short-RNAs. Second, for each short-RNA observed in this library, we computed sum, the sum of the observation frequencies of the predicted miRNAs it supports. Then, short-RNA support for each miRNA was adjusted to be the number of its observations multiplied by the ratio between the observation frequency of this miRNA and sum. Finally, the frequency of each predicted miRNA was recalculated to be the sum of the adjusted frequencies of the short-RNAs supporting it. To compare the abundance of predicted miRNAs across libraries we normalized the frequencies of observations in each library to sum to 100%, comparing frequencies of observations in each library rather than raw observations. This normalization step was necessary due to the variability between the total number of observations across libraries.

g. Clustering short-RNAs. Short-RNAs that did not support predicted miRNAs were categorized according to the quality of their best alignments to hg18. These short-RNA were clustered following the procedure described in (c) but with no secondary structure requirements (Table 2 and Tables 9-10). Table 3 and Tables 9-10 were constructed from perfect matches and single mismatches, respectively, as described in (c). Tables 4 and 5 smirREGs were constructed from single-mismatches, double mismatches and three or more mismatches, respectively.

Estimation of Libraries Complexity

A bootstrap technique was used to estimate the total number of miRNAs expressed in each library and the number of short-RNAs must be sequenced to achieve a complete coverage. Bootstrapping is a statistical technique for estimating properties of an “estimator” by measuring those properties in multiple subsets of the samples^(s3,s4). Specifically, we estimated the distribution of mature miRNAs obtained by random sub-sampling different size short-RNA libraries from each complete library. For each size N=10, 20, . . . N_(t), where N_(t) is the total number of short-RNAs in the library, we randomly sampled 1000 libraries of size N and computed the number r(N) of inferred miRNAs, resulting in a distribution p(r(N)) for which we could compute standard statistical parameters such as average, variance, mode and median. Based on this sampling, we can extrapolate p(r(N)) for increasing values of N to determine at which point it is no longer efficient to use larger values of N to increase miRNA coverage. To achieve this, we fitted the data to the parametric function ƒ(x)=K*(1−e^(−mx)). Since we include both experimentally confirmed and putative mature miRNAs and since bootstrapping can produce optimistic results we expect that the estimated values constitute an upper boundary on the real library complexity.

Based on this analysis, we estimated that the total numbers of mature miRNAs are: 188 (naïve), 211 (memory), 219 (centroblasts) and 225 (Ramos). Thus, the libraries sequenced in this study cover respectively 84.0% (naïve), 87.2% (memory), 86.8% (centroblasts), and 85.8% (Ramos) of the expressed miRNAs in these cellular phenotypes. FIG. 17 gives the 95% confidence intervals for p(r(N)) at each sampling point, in addition to the curve of the associated extrapolated function for each library. Clearly, the bootstrap analysis estimate of the total number of miRNA is correct only if the abundance of the miRNAs expressed in the sampled populations closely matches that of known miRNA in miRBase. This is not unreasonable if, as was done here, only miRNAs that are specific to a B cell differentiation stage or transformation are considered. Thus, this does not estimate the total number of miRNA expressed across all human cell types, stages of differentiation and neoplastic transformations, which could be several fold larger than what was estimated from the B cell clone libraries.

Orthology and Conservation Analysis

We investigated conservation of known and predicted precursor and mature human miRNA in chimp (panTro2), monkey (rheMac2), dog (canFam2) mouse (mm8) and rat (rn4). We obtained 678 miRNA precursor sequences from miRBase (v.11.0); 677 (672 unique) mature miRNAs; and 170 (167 unique) star sequences. In total, we obtained 947 locations for mature and star mirBase sequences. We predicted 926 precursors of which 146 match miRBase precursors and 780 are newly predicted. Categorizing these by their corresponding mature sequences, 762 precursors correspond to mature miRNAs that are not included in the miRBase and 164 precursors are associated with 129 predicted miRNAs that match miRBase miRNAs. Of the 762 newly predicted precursors, one overlaps with a miRBase precursor and its corresponding predicted miRNA is a candidate star sequence; 19 precursors associated with 8 mature sequences listed in miRBase database.

Here, we predicted 762 miRNA genomic locations associated with unique mature miRNA sequences not included in miRBase. Of these 762 predicted miRNA genomic locations, one overlaps with a miRBase precursor and is a candidate star sequence. We identified 164 precursors associated with 129 predicted miRNAs matching the sequence of known miRNAs; 19 of the 164 precursors, associated with 9 known miRNAs, do not match known precursors. miRNA conservation has been repeatedly used to help identify putative miRNA mappings to genomes. To identify putative ortholog miRNAs we relied on UCSC-provided Blastz pairwise alignments between human and target species^(s5). We used two related but complementary methods: (1) map the mature human miRNA to its ortholog location as specified by pairwise alignment; and (2) map the precursor of the human miRNA to its ortholog location as specified by pairwise alignment, expanding the human region to include at least 80 bases from both sides of the mature region, and identifying regions in the target that match the sequence of the mature human miRNA.

Method 1 is the simplest but fails to account for alignment inaccuracies and local mutations that may shift the position of the mature sequence in the target species. Method 2 accounts for locally imperfect Blastz mapping, but relies on conservation of larger regions that may not be subject to the same selective pressure as the mature miRNA. Alignment-based mapping of the human mature miRNA to its target were required to have either perfect conservation of the entire mature miRNA sequence or conservation of seeds composed of seven bases starting from the second position of the human mature sequence followed by conservation of 3 bases starting from the 12th, 13^(th), or 14th position as suggested by^(s6). We scanned the entire mapped ortholog region for a match to the human mature sequence or to its seed.

Comparison with Previously Reported MiRNA Prediction from Short-RNA Libraries

Landgraf et al.^(s7) used more restrictive miRNA charachterizations for mature miRNA prediction, annotation and conservation. They required that at least 60% of the observations associated with a predicted miRNA align at the 5′ end. We made no such restriction, and some of the miRNAs with the highest number of observations in our libraries, such as CU-1026 and CU-1018, are supported by a high proportion of 5′-misaligned cloned sequences. Landgraf et al. eliminated predictions that can be derived from repeat sequences by excluding precursors that contain more than 30% repetitive elements and that match hg18 more than 10 times with at least 75% identity. We annotated mature sequences that match known repeats but did not eliminate them. Finally, Landgraf et al. formulated extensive criteria for sequence orthology, requiring sequence conservation greater than 75% in multiple alignments across vertebrates and either restricting the 20 5′-most misaligned nucleotides to be transitions or requiring 100% conservation in positions 2 through 8 and 90% conservation overall. We, as described above, simply considered full conservation and seed-based conservation, mapping human to primates, dog and rodents.

REFERENCES

-   s1. Griffiths-Jones, S. miRBase: the microRNA sequence database.     Methods Mol Biol 342, 129-38 (2006). -   s2. Griffiths-Jones, S., Grocock, R. J., van Dongen, S., Bateman, A.     & Enright, A. J. miRBase: microRNA sequences, targets and gene     nomenclature. Nucleic Acids Res 34, D140-4 (2006). -   s3. Harrell, F. E. Regression modeling strategies: with applications     to linear models, logistic regression, and survival analysis     (Springer, N.Y., 2001). -   s4. Hinkley, A. C. D. a. D. V. Bootstrap Methods and their     Applications (Cambridge University Press, New York, 1997). -   s5. Schwartz, S. et al. Human-mouse alignments with BLASTZ. Genome     Res 13, 103-7 (2003). -   s6. Grimson, A. et al. MicroRNA targeting specificity in mammals:     determinants beyond seed pairing. Mol Cell 27, 91-105 (2007). -   s7. Landgraf, P. et al. A mammalian microRNA expression atlas based     on small RNA library sequencing. Cell 129, 1401-14 (2007).

Example 4

miRNome of Human Mature B Cells

Summary: The full set of microRNAs (miRNAs) in the human genome is not known. Because presently known miRNAs have been identified by virtue of their abundant expression in a few cell types, many tissue-specific miRNAs remain unrevealed. To understand the role of miRNAs in B cell function and lymphomagenesis, we generated short-RNA libraries from normal human B cells at different stages of development (naïve, germinal center, memory) and from a Burkitt lymphoma cell line. A combination of cloning and computational analysis identified 178 miRNAs (miRNome) expressed in normal and/or transformed B cell libraries. Most notably, the B cell miRNome included 75 miRNAs which to our knowledge have not been previously reported and of which 66 have been validated by RNA blot and/or RT-PCR analyses. Numerous miRNAs were expressed in a stage- or transformation-specific fashion in B cells, suggesting specific functional or pathologic roles. These results provide a resource for studying the role of miRNAs in B cell development, immune function, and lymphomagenesis.

A new mechanism of post-transcriptional regulation has been revealed with the discovery of microRNAs (miRNAs), a class of short RNAs that impair translation or induce mRNA degradation by binding to the 3′ untranslated region of target mRNA ([Bartel, 2004] and [Kim, 2005]). A recent release of the miRBase database (v.11.0) ([Griffiths-Jones, 2006] and [Griffiths-Jones et al., 2006]) reports 847 human miRNAs. However, the discovery of miRNAs is still an on-going process with variable predictions about the total number of miRNAs expressed in mammalian cells ranging from one thousand to several thousands ([Bentwich et al., 2005] and [Miranda et al., 2006]). The reported miRNAs have been identified from a limited number of cell types or from tissues whose cellular heterogeneity may favor the identification of ubiquitous and abundant miRNA. In fact, a recent report aiming for the identification of miRNA expression profiles from a large panel of different mammalian tissues and cell types led to the discovery of only 12 previously unreported human miRNA (Landgraf et al., 2007). These findings led to the conclusion that most miRNAs are known and that most of them are ubiquitously expressed (Landgraf et al., 2007). Nonetheless, additional analyses of purified cell populations have led to the identification of tissue- and stage of differentiation-specific miRNAs in a few tissues, suggesting the existence of tissue-specific miRNA expression ([Calabrese et al., 2007] and [Cummins et al., 2006]).

The role of miRNAs in B lymphocyte development and B cell lymphomagenesis is largely unknown. A critical stage of the differentiation process leading to effector B cells is represented by the germinal centers (GC), the structures that develop when mature naive B cells encounter the antigen in the secondary lymphoid organs and are stimulated to proliferate and differentiate into GC centroblasts (CB). During the GC reaction, B cells undergo somatic hypermutation of their immunoglobulin-variable regions and class switch recombination. B cells that have acquired the ability to express high-affinity immunoglobulins are then positively selected and further differentiate into the final effectors of the humoral immune response, i.e., memory B cells and plasma cells (Klein and Dalla-Favera, 2008). Naive, GC, and memory B cells are also relevant targets of disease because each of these B cell subpopulations can be affected by malignant transformation leading to different types of lymphomas and leukemias ([Klein and Dalla-Favera, 2008] and [Kuppers and Dalla-Favera, 2001]).

Several initial observations suggest an important role of specific miRNAs in B cell function and malignancy. Via mouse models, miR-155 has been demonstrated to affect regulation of the GC response through modulation of cytokine production ([Rodriguez et al., 2007] and [That et al., 2007]) and by direct post-transcriptional regulation of the activation-induced cytidine deaminase (AID) ([Dorsett et al., 2008] and [Teng et al., 2008]). Recently, miR-150 has been shown to target MYB, a critical transcription factor involved in the control of B cell differentiation (Xiao et al., 2007). In B cell lymphomas, 13q31 amplification has been associated with the overexpression of the miR-17-92 cluster and its enforced expression in a murine B cell lymphoma model showed a role in accelerating tumor development (He et al., 2005). Furthermore, miR-15a and miR-16 have been implicated in the pathogenesis of B cell chronic lymphocytic leukemia (CLL) ([Calin et al., 2002] and [Calin et al., 2005]).

As a basis for a comprehensive analysis of the role of miRNAs in B cell function and lymphomagenesis, this study was aimed at identifying the miRNAs expressed (miRNome) in the human mature B cell compartment, including naive, GC, and memory B cells. By using a combination of cloning and computational analysis, we report the identification of 178 miRNAs representing the mature B cell miRNome, including 75 previously unreported miRNAs. The results show that normal B cell subpopulations are characterized by specific miRNA “signatures,” suggesting functional roles of miRNAs in B cell differentiation and transformation.

Results

Construction of Short-RNA Libraries from Human B Cell Subpopulations. Short-RNA libraries were generated by cloning RNA fractions of 15-30 nt from human centroblasts, naive, and memory B cells purified from tonsils, as well as from the Burkitt lymphoma cell line Ramos, which is representative of malignant transformation of GC B cells. Approximately 3,500 sequences were analyzed from each library, corresponding to 13,788 total short-RNAs (2,632 nonredundant sequences). By using a bootstrap approach ([Harrell, 2001] and [Davison and Hinkley, 1997]), we estimated that more than 85% of the complexity of the libraries has been examined (FIG. 23).

Mapping of Short-RNA Sequences to the Human Genome. The cloned sequences were subjected to a computational analysis (see Supplemental Experimental Procedures described in Example 3) summarized in the flowchart illustrated in FIG. 24. Each cloned sequence was first matched to the human genome assembly (March 2006, hg18) to retrieve the genomic regions from which the short RNAs originated. One or more genomic locations were identified for 2086 (80%) of the cloned sequences considering both perfect matches and single mismatches (FIG. 24). Consistent with previous observations, 3′-end mismatches were the most common and showed a clear preference for A in the last position (Neilson et al., 2007). The failure of 546 short-RNA sequences to align with the human genome is likely due, at least in part, to errors introduced by PCR during the cloning procedure (FIG. 24). However, a small subset of these short RNAs lacking a corresponding genomic region in Homo sapiens have been cloned with high frequencies in multiple libraries and showed differential expression during B cell differentiation, suggesting that they may represent bona fide short-RNA species, which cannot be mapped on the current reference genome probably because of polymorphisms and/or post-transcriptional modifications. However, given the difficulty of assigning genomic coordinates to these sequences, they were omitted from further analyses.

Computational Prediction of Precursor and Mature miRNAs. In order to identify candidate miRNAs among the cloned short-RNA sequences, we developed a computational pipeline aiming at the identification of potential miRNA precursors based on the investigation of their genomic location and folding characteristics (FIG. 18 and Supplemental Experimental Procedures in Example 3). In brief, short RNA sequences were mapped to the human genome and their respective candidate genomic precursors (±90 nt) were retrieved and analyzed for secondary structure, size and energy of the loop, and number of complimentary base pairs in the stem of the loop. The prediction was performed on the full set of nonredundant short RNAs (2632 sequences) for which one or more genomic locations could be identified (FIG. 24). The analysis led to the identification of candidate miRNA precursors for 1646 short-RNA sequences, which were then clustered allowing for (1) the variability observed at the mature miRNA 3′ ends (and less dramatically at the 5′ ends) including nucleotide substitutions and deletions, and (2) the possibility of miRNA editing as previously reported ([Kawahara et al., 2007] and [Luciano et al., 2004]) (Supplemental Experimental Procedures in Example 3). After annotating each candidate mature miRNA, those which matched mRNA, rRNA, tRNA, post-transcriptionally modified t-RNA, and other ncRNA (yRNA, sn/snoRNA) sequences, and were present only once in the libraries were not considered further. The remaining sequences were still considered miRNAs based on criteria (identification of genomic loci consistent with a pre-miRNA, length, recurrence, differential expression, detection in the Ago complex) that suggest their existence as bona fide miRNA. Moreover, consistent with the miRNA length of the Homo sapiens miRBase database (v11.0), only mature candidate miRNAs of length 17-28 nt were considered.

Overall, the analysis identified 178 mature miRNAs, of which 103 were known and 75 were not previously reported, to our knowledge (Table 7 and FIG. 24). Computational prediction of precursor miRNAs (pre-miRNA) identified 114 precursors already reported to potentially code for the 103 known mature miRNA, and 274 genomic locations containing new candidate pre-miRNA associated with the 75 previously unreported and 8 known mature miRNAs (FIG. 19 and Table 7).

TABLE 7 (PART A) List of known and newly identified bona fide and candidate mature miRINAs and their predicted precursors. Genomic locations are provided for all candidate miRNA. Frequencies have been calculated only for bonafide miRNA (cloned at least 2 times in the B cell libraries). SEQ ID ID NO. Mature miRNA sequence Annotations CU-1026 1 TGTAGTGTTTCCTACTTTATGGA Mature:hsa-miR-142-3p:MIMAT0000434 CU-1064 2 TAGCTTATCAGACTGATGTTGA Mature:hsa-miR-21:MIMAT0000076 CU-1061 3 TAAAGTGCTTATAGTGCAGGTAG Mature:hsa-miR-20a:MIMAT0000075 CU-1035 4 TAGCAGCACATCATGGTTTACA Mature:hsa-miR-15b:MIMAT0000417 CU-1037 5 TAGCAGCACGTAAATATTGGCG Mature:hsa-miR-16:MIMAT0000069 CU-1001 6 TGAGGTAGTAGGTTGTATAGTT Mature:hsa-let-7a:MIMAT0000062 CU-1116 7 TATTGCACTTGTCCCGGCCTGT Mature:hsa-miR-92a:MIMAT0000092 CU-1018 8 TCCCACCGCTGCCACCA Mature:hsa-miR-1280:MIMAT0005946 CU-1006 9 TGAGGTAGTAGATTGTATAGTT Mature:hsa-let-7f:MIMAT0000067 CU-1079 10 TAGCACCATCTGAAATCGGTTA Mature :hsa-miR-29a:MIMAT0000086 CU-1033 11 TAGCAGCACATAATGGTTTGT Mature:hsa-miR-15a:MIMAT0000068 CU-1124 12 CCCATAAAGTAGAAAGCACTA Mature:hsa-miR-i42-5p:MIMAT0000433 CU-1007 13 TGAGGTAGTAGTTTGTACAGTT Mature:hsa-let-7g:MIMAT00004 14 CU-1008 14 TGAGGTAGTAGTTTGTGCTGTT Mature:hsa-let-7i:MIMAT00004i 5 CU-1082 15 TAGCACCATTTGAAATCGGTTA Mature:hsa-miR-29c:MIMAT000068 1 CU-1085 16 TGTAAACATCCTACACTCTCAGC Mature:hsa-miR-30c:MIMAT0000244 CU-1039 17 CAAAGTGCTTACAGTGCAGGTAG Mature:hsa-miR-17:MIMAT0000070 CU-1071 18 CATTGCACTTGTCTCGGTCTGA Mature:hsa-miR-25:MIMAT000008 1 CU-1046 19 CAACGGAATCCCAAAAGCAGCTG Mature:hsa-miR-191:MIMAT0000440 CU-1057 20 TGTGCAAATCCATGCAAAACTGA Mature:hsa-miR-19b:MIMAT0000074 CU-1024 21 TACCACAGGGTAGAACCACGGA Mature:hsa-miR-140-3p:MIMAT0004597 CU-1084 22 TGTAAACATCCTACACTCAGCT Mature:hsa-miR-30b:MIMAT0000420 CU-1003 23 TGAGGTAGTAGGTTGTGTGGTT Mature:hsa-let-7b:MIMAT0000063 CU-1080 24 TAGCACCATTTGAAATCAGTGTT Mature:hsa-miR-29b:MIMAT0000100 CU-1012 25 TAAAGTGCTGACAGTGCAGAT Mature:hsa-miR-106b:MIMAT0000680 CU-1092 26 TCCCTGTCCTCCAGGAGCTC Mature:hsa-miR-339-5p:MIMAT0000764 CU-1072 27 TTCAAGTAATCCAGGATAGGCT Mature:hsa-miR-26a:MIMAT0000082 CU-1118 28 CAAAGTGCTGTTCGTGCAGGTAG Mature:hsa-miR-93:MIMAT0000093 CU-1067 29 TGTCAGTTTGTCAAATACCCCA Mature:hsa-miR-223:MIMAT0000280 CU-1027 30 TGAGAACTGAATTCCATGGGTT Mature:hsa-miR-146a:MIMAT0000449 CU-1029 31 TCTCCCAACCCTTGTACCAGT Mature:hsa-miR-150:MIMAT0000451 CU-1015 32 TCCCTGAGACCCTAACTTGTGA Mature:hsa-miR-125b:MIMAT0000423 CU-1093 33 TCTCACACAGAAATCGCACCCGTC Mature:hsa-miR-342-3p:MIMAT0000753 CU-1016 34 GTCCCTGTTCGGGCGCCA Mature:hsa-miR-1274b:MIMAT0005938 CU-1056 35 TGTGCAAATCTATGCAAAACTGA Mature:hsa-miR-19a:MIMAT0000073 CU-1086 36 TGTAAACATCCCCGACTGGAAG Mature:hsa-miR-30d:MIMAT0000245 CU-1065 37 AGCTACATTGTCTGCTGGGTT Mature:hsa-miR-221:MIMAT0000278 CU-1004 38 AGAGGTAGTAGGTTGCATAGTT Mature:hsa-let-7d:MIMAT0000065 CU-1011 39 CCGCACTGTGGGTACTTGCT Star:hsa-miR-106b*:MIMAT0004672 CU-1010 40 AGCAGCATTGTACAGGGCTATGA Mature:hsa-miR-103:MIMAT0000101 CU-1050 41 AACTGGCCCTCAAAGTCCCGCT Mature:hsa-miR-193b:MIMAT0002819 CU-1091 42 GCCCCTGGGCCTATCCTAGAA Mature:hsa-miR-331-3p:MIMAT0000760 CU-1023 43 AGCTGGTGTTGTGAATCAGGCCGT Mature:hsa-miR-138:MIMAT0000430 CU-1101 44 TGAGGGGCAGAGAGCGAGACTT Mature:hsa-miR-423-5p:MIMAT0004748 CU-1066 45 GCTACATCTGGCTACTGGGTCT Mature:hsa-miR-222:MIMAT0000279 CU-1017 46 GTGGGGGAGAGGCTGTA Mature:hsa-miR-1275:MIMAT0005929 CU-5001 47 CTATACGACCTGCTGCCTTTC Star:hsa-let-7d*:MIMAT0004484 CU-1032 48 TTAATGCTAATCGTGATAGGGGT Mature:hsa-miR-155:MIMAT0000646 CU-1108 49 AGGGGGAAAGTTCTATAGTC Mature:hsa-miR-625:MIMAT0003294 CU-1055 50 ACAGTAGTCTGCACATTGGTT Mature:hsa-miR-199b-3p:MIMAT0004563 CU-1042 51 AACATTCAACGCTGTCGGTGAGTT Mature:hsa-miR-181a:MIMAT0000256 CU-1113 52 TGGAAGACTAGTGATTTTGTTGT Mature:hsa-miR-7:MIMAT0000252 CU-1098 53 TAATGCCCCTAAAAATCCTTAT Mature:hsa-miR-365:MIMAT0000710 CU-1052 54 TAGCAGCACAGAAATATTGGCA Mature:hsa-miR-195:MIMAT0000461 CU-1568 55 TGAGGTAGTAGGTTGTAT Mature:hsa-let-7c:MIMAT0000064 CU-1103 56 TCCTGTACTGAGCTGCCCCGAG Mature:hsa-miR-486-5p:MIMAT0002177 CU-1014 57 TCCCTGAGACCCTTTAACCTGTGA Mature:hsa-miR-125a-5p:MIMAT0000443 CU-1068 58 ATCACATTGCCAGGGATTTCCA Mature:hsa-miR-23a:MIMAT0000078 CU-1019 59 TCACAGTGAACCGGTCTCTTT Mature:hsa-miR-128:MIMAT0000424 CU-1076 60 CACTAGATTGTGAGCTCCTGGA Mature:hsa-miR-28-3p:MIMAT0004502 CU-1111 61 CAACAAATCACAGTCTGCCAT Star:hsa-miR-7-1*:MIMAT0004553 CU-1062 62 CAAAGTGCTTATAGTGCAGGTAG Mature:hsa-miR-20b-mm:MIMAT0001413 CU-1115 63 AGGTTGGGATCGGTTGCAATGCT Star:hsa-miR-92a-1*:MIMAT0004507 CU-1126 64 ACATTCATTGCTGTCGGTGGGTT Mature:hsa-miR-181b:MI0000270 CU-5016 1093 AATGACACGATCACTCCCGTTGAG Mature :hsa-miR-425:MIMAT0003393 CU-1096 65 TCCCCCAGGTGTGATTCTGATT Mature:hsa-miR-361-3p:MIMAT0004682 CU-1054 66 CCCAGTGTTCAGACTACCTGTTC Mature:hsa-miR-199a-5p:MIMAT0000231 CU-1112 567 ACCAATATTACTGTGCTGCTT Star:hsa-miR-16-2*:MIMAT0004518 CU-1087 68 TGTAAACATCCTTGACTGGAAGCT Mature:hsa-miR-30e:MIMAT0000692 CU-1045 69 TAAGGTGCATCTAGTGCAGATA Mature:hsa-miR-18a:MIMAT0000072 CU-1069 70 ATCACATTGCCAGGGATTACCA Mature:hsa-miR-23b:MIMAT0000418 CU-1044 71 ACTGCCCTAAGTGCTCCTTCTG Star:hsa-miR-18a*:MIMAT0002891 CU-1083 72 TGTAAACATCCTCGACTGGA Mature:hsa-miR-30a:MIMAT0000087 CU-1009 73 TACAGTACTGTGATAACTGAAG Mature:hsa-miR-101:MIMAT0000099 CU-1030 74 CTAGACTGAAGCTCCTTGAGG Mature:hsa-miR-151-3p:MIMAT0000757 CU-1088 1094 TGGGTTGAGAGGGCGAA Mature:hsa-miR-320a:MIMAT0000510 CU-1095 75 TGGCAGTGTCTTAGCTGGTTGTT Mature:hsa-miR-34a:MIMAT0000255 CU-1119 76 TGAGGTAGTAAGTTGTATTGTT Mature:hsa-miR-98:MIMAT0000096 CU-1028 77 TGAGAACTGAATTCCATAGGCTGT Mature:hsa-miR-146b-5p:MIMAT0002809 CU-1031 78 TCGAGGAGCTCACAGTCTAGTA Mature:hsa-miR-151-5p:MIMAT0004697 CU-1100 79 AGCTCGGTCTGAGGCCCCTCAG Mature:hsa-miR-423-3p:MIMAT0001340 CU-1038 80 ACTGCAGTGAAGGCACTTGTAG Star:hsa-miR-17*:MI MAT0000071 CU-1040 81 ACCATCGACCGTTGATTGTA Star:hsa-miR-181a*:MIMAT0000270 CU-1053 82 TTCACCACCTTCTCCACCCAG Mature:hsa-miR-197:MIMAT0000227 CU-1075 83 TTCACAGTGGCTAAGTTCTG Mature:hsa-miR-27b:MIMAT0000419 CU-1073 84 TTCAAGTAATTCAGGATAGGTT Mature:hsa-miR-26b:MIMAT0000083 CU-1110 85 TGGGTTTACGTTGGGAGAACT Mature:hsa-miR-629:MIMAT0004810 CU-1005 87 TGAGGTAGGAGGTTGTATAGTT Mature:hsa-let-7e:MIMAT0000066 CU-1081 88 TGACCGATTTCTCCTGGTGTT Star:hsa-miR-29c*:MIMAT0004673 CU-1117 89 TATTGCACTCGTCCCGGCC Mature:hsa-miR-92b:MIMAT0003218 CU-1094 90 GGGGTGCTATCTGTGATTGA Mature:hsa-miR-342-5p:MIMAT0004694 CU-1021 91 GCATGGGTGGTTCAGTGGTAGAA Mature:hsa-miR-1308:MIMAT0005947 CU-1089 92 CTGGCCCTCTCTGCCCTT Mature:hsa-miR-328:MIMAT0000752 CU-1047 93 CTGACCTATGAATTGACAGC Mature:hsa-miR-192:MIMAT0000222 CU-1099 94 CTCCTGACTCCAGGTCCTGTG Star:hsa-miR-378*:MIMAT0000731 CU-1105 95 CGTCAACACTTGCTGGTT Mature:hsa-miR-505:MIMAT0002876 CU-1034 96 CGAATCATTATTTGCTGCTCT Star:hsa-miR-15b*:MIMAT0004586 CU-5002 97 CATCGGGAATGTCGTGTCCGCC Star:hsa-miR-425*:MI0001448 CU-1025 98 CAGTGGTTTTACCCTATGGTA Mature:hsa-miR-140-5p:MIMAT0000431 CU-1022 99 CAGTGCAATGATGAAAGGGCAT Mature:hsa-miR-130b:MIMAT0000691 CU-1104 100 CAGCAGCACACTGTGGTTTGT Mature:hsa-miR-497:MIMAT0002820 CU-1106 101 CACGCTCATGCACACACCCAC Mature:hsa-miR-574-3pMIMAT0003239 CU-1077 102 AAGGAGCTCACAGTCTATTGAG Mature:hsa-miR-28-5p:MIMAT0000085 CU-1132 131 GCCGGGTACTTTCGTATTTT NEW CU-1137 132 GCTAAGGAAGTCCTGTGCTCAGTTTT NEW CU-1178 148 GGGTGTGCGTGTTTTT NEW CU-1164 150 GAGAGCGCTCGGTTTTT NEW CU-1148 151 TGGTGTGGTCTGTTGTTTT NEW CU-1221 152 TGTGCTCCGGAGTTACCTCGTTT NEW CU-1180 155 AACCGAGCGTCCAAGCTCTTTCCATTTT NEW CU-1155 156 TCCCCGCACCTCCACCA NEW CU-1175 162 GGCGTGATTCATACCTTTT NEW CU-1197 169 TGTGGTGGCTTACTTTT NEW CU-1146 172 AGAAAGGCCGAATTTTA NEW CU-1212 157 TCCCCGGCACTTCCACCA NEW CU-1251 232 CCCACCCAGGGACGCCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1254 233 TCCCCGGCACCTCCACCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1298 234 ATCCCGGACGAGCCCCCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1153 142 CCCCCCACTGCTAAATTTGACTGGCTT refseqGeneIntron-annotate;rnaGene-annotate CU-1276 236 TCGATTCCCGGCCAATGCACCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1303 237 ATCCCACTTCTGACACCA computGene-annotate;refseqGeneIntron-annotate;tRNAprefix- annotate CU-1242 239 TCCCCGTACGGGCCACCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1241 243 AGTCCCATCTGGGTCGCCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1575 244 CCCCCCACTGCTAAATTTGACTGGA refseqGeneIntron-annotate;rnaGene-annotate CU-1243 246 GTCCCTTCGTGGTCGCCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1300 248 TCCTCACACGGGGCACCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1278 249 TAACGGCCGCGGTACCC refseqGeneIntron-annotate CU-1264 250 GAGGGGGACCAAAAAAAA refseqGeneIntron-annotate CU-1130 133 CCCGGGTTTCGGCACCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1380 354 TAGGTTTGGTCCTAGCCTTTCT piRNA-annotate;refseqGeneIntron-annotate CU-1246 252 GGGGGGTAAAAAAAAA refseqGeneIntron-annotate CU-1277 254 GAGCCATGATGATACCACTGAGC refseqGeneIntron-annotate CU-1345 257 AGAACACTACGAGCCACA mRNA-annotate;refseqGeneIntron-annotate CU-1352 258 ACCCCACTTCTGGTACCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1324 260 TCTCGGTGGAACCTCCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1269 262 TACCGAGCCTGGTGATAGC refseqGeneIntron-annotate CU-1281 263 GCAGCGCCAGCCTCCCGCCCTAC refseqGeneIntron-annotate CU-1339 265 ATCCCCAGCACCTCCACCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1293 266 AGCAGTGATGTCCTGAAAATTCTGAAG refseqGeneIntron-annotate CU-1307 267 ACCCCACTATGCTTAGCCCT mRNA-annotate;refseqGeneIntron-annotate CU-1294 268 AAAGGACCTGGCGGTGCTTC mRNA-annotate;refseqGeneIntron-annotate CU-1369 350 TCCCCGGCATCTCCACCA coMputGene-annotate;tRNAprefix-annotate CU-1191 143 GCCCGCATCCTCCACCA tRNAprefix-annotate; CU-1173 145 ATCCCACTCCTGACACCA tRNAprefix-annotate; CU-1142 149 TCGATTCCCGGCCCATGCACCA tRNAprefix-annotate; CU-1186 153 TCCCCGACACCTCCACCA tRNAprefix-annotate; CU-1371 352 TCTAGAGGAGCCTGTTCTGTA mRNA-annotate CU-1381 353 TCGATTCCCGGTCAGGGAACCA repeats-annotate;tRNAprefix-annotate CU-1213 158 TCACCCCATAAACACCA tRNAprefix-annotate; CU-1363 355 CGTTCGCGCTTTCCCCTG rnaGene-annotate CU-1220 161 TTCCCCGACGGGGAGCCA tRNAprefix-annotate; CU-1396 356 TAAGTGTTTGTGGGTTA rnaGene-annotate CU-1570 171 ATCCCCAGCATCTCCACCA tRNAprefix-annotate; CU-1524 368 CCCCCACAACCGCGCTTGACTAGC mRNAaII-annotate;yRNA-eliminate;rnaGene-annotate CU-1453 369 CCCTGCTCGCTGCGCCA tRNAprefix-annotate;refseqGeneExon-eliminate; CU-1477 370 CTCCCACTGCTTCACTTGACTAGC yRNA-eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-1222 372 TCACGTCGGGGTCACCA refseqGeneExon-eliminate;tRNAprefix-annotate CU-1388 373 TCCCTGGTGGTCTAGTGGTTAGGATTCG tRNAcomputational-annotate;refseqGeneIntron-annotate; rnaGene-annotate;HStRNA-eliminate;piRNA-annotate CU-1488 375 TCCTGCCGCGGTCGCCA tRNAprefix-annotate;refseqGeneExon-eliminate; CU-1557 376 GGAGAGAACGCGGTCTGAGTGGT snoRNA-eliminate;wgRNA-annotate;rnaGene-annotate CU-1379 377 TCGGGTGCGAGAGGTCCCGGGT tRNAcomputational-annotate;HStRNA-eliminate;rnaGene- annotate CU-1542 378 GGCTGGTCCGATGGTAGTGGGTT mRNAaII-annotate;yRNA-eliminate;refseqGeneIntron-annotate; rnaGene-annotate CU-1550 379 CGGAAGCGTGCTGGGCCC tRNAcomputational-annotate;tRNA-eliminate;rnaGene-annotate; HStRNA- eliminate;piRNA-annotate CU-1513 381 GCGGGTGATGCGAACTGGAGTCTGAGC computGene-annotate;snoRNA-annotate;refseqGeneExon- eliminate;rnaGene-annotate;snoRNA-eliminate;wgRNA-annotate CU-1368 382 GACGAGGTGGCCGAGTGG tRNAcomputational-annotate;rnaGene-annotate;HStRNA- eliminate;piRNA-annotate CU-1370 351 CTGATTGCTCCTGTCTGATT mRNAaII-annotate;refseqGeneExon-eliminate;wgRNA-annotate; exEID-annotate;rnaGene-annotate CU-1470 384 CTCCTGGCTGGCTCGCCA mRNAaII-annotate;computGene-annotate;exEID-annotate; tRNAprefix-annotate;refseqGeneIntron-annotate;refseqGene Exon-eliminate; CU-1538 386 GGCTGGTCCGAGTGCAGTGGTGTTTA yRNA-eliminate;refseqGeneIntron-annotate;rnaGene-annotate CU-1486 387 CTGCTGTGATGACATTC computGene-annotate;snoRNA-annotate;refseqGeneExon- eliminate;rnaGene-annotate;snoRNA-eLiminate;wgRNA-annotate CU-1382 389 TCCTCGTTAGTATAGTGGTGAGTATCCC tRNAcomputational-annotate;rnaGene-annotate;HStRNA- eliminate;piRNA-annotate CU-1403 391 GCATTGGTGGTTCAGTGGTAGA rnaGene-annotate;tRNAcomputational-annotate;piRNA-annotate; tRNA-eliminate;refseqGeneIntron-annotate;HStRNA-eliminate CU-1457 395 TTCTCACTACTGCACTTGACTA mRNAaII-annotate;exEID-annotate;yRNA-eliminate;rnaGene- annotate;refseqGeneIntron-annotate;refseqGeneExon-eliminate CU-1440 396 TGGTTATCACGTTCGCC tRNAcomputational-annotate;tRNA-eliminate;rnaGene-annotate; HStRNA-eliminate;piRNA-annotate CU-1528 397 TAGGGGTATGATTCTCGCT tRNAcomputational-annotate;tRNA-eliminate;HStRNA-eliminate; rnaGene-annotate CU-1288 255 CGTCCATGATGTTCCGCAA mRNAall-annotate;snoRNA-annotate;refseqGeneIntron-annotate; refseqGeneExon-eliminate;piRNA-annotate;wgRNA-annotate CU-1545 398 CCACGAGGAAGAGAGGTAGC snoRNA-annotate;snoRNA-eliminate;wgRNA-annotate;rnaGene- annotate CU-1323 259 TGTATTGTGAGACATTC mRNAaII-annotate;refseqGeneExon-eliminate;refseqGeneIntron- annotate;wgRNA-annotate;rnaGene-annotate CU-1244 399 GTCAGGATGGCCGAGCGGTCT tRNAcomputational-annotate;rnaGene-annotate;HStRNA- eliminate;refseqGeneIntron-annotate Candidate miRNAs observed only once in any of the four libraries CU-1123 103 TTGGTCCCCTTCAACCAGCTGT Mature:hsa-miR-133a:MIMAT0000427 CU-1074 104 TTCACAGTGGCTAAGTTCCGA Mature:hsa-miR-27a:MIMAT0000084 CU-1097 105 TTATCAGAATCTCCAGGGGTAA Mature:hsa-miR-361-5p:MIMAT0000703 CU-1043 106 TGGAGAGAAAGGCAGTTCCTGAT Mature:hsa-miR-185:MIMAT0000455 CU-1112 107 TGAGACCTCTGGGTTCTGAGCT Mature:hsa-miR-769-5p:MIMAT0003886 CU-1122 108 TCTTTGGTTATCTAGCTGTATGA Mature:hsa-miR-9:MIMAT0000441 CU-1109 109 TCTAGTAAGAGTGGCAGTCGA Mature:hsa-miR-628-3p:MIMAT0003297 CU-1090 110 TATTGCACATTACTAAGTTGA Mature:hsa-miR-32:MIMAT0000090 CU-1013 111 TAAGGCACGCGGTGAATGCCA Mature:hsa-miR-124:MIMAT0000422 CU-1058 112 TAACACTGTCTGGTAACGATGTT Mature:hsa-miR-200a:MIMAT0000682 CU-1059 113 GTGAAATGTTTAGGACCACTAG Mature:hsa-miR-203:MIMAT0000264 CU-1102 114 GCAGTCCATGGGCATATACACA Mature:hsa-miR-455-3p:MIMAT0004784 CU-1107 115 GAGCTTATTCATAAAAGTGCAG Mature:hsa-miR-590-5p:MIMAT0003258 CU-1114 116 CTGCCCTGGCCCGAGGGACCGA Mature:hsa-miR-874:MIMAT0004911 CU-1002 117 CTATACAACCTACTGCCTTC Star:hsa-let-7b*:MIMAT0004482 CU-1049 118 CGGGGTTTTGAGGGCGAGATGA Star:hsa-miR-193b*:MIMAT0004767 CU-1051 119 CCAGTGGGGCTGCTGTTATCTG Star:hsa-miR-194*:MIMAT0004671 CU-1036 120 CCAGTATTAACTGTGCTGCTGA Star:hsa-miR-16-1*:MIMAT0004489 CU-1121 121 CACCCGTAGAACCGACCTTGCG Mature:hsa-miR-99b:MIMAT0000689 CU-1120 122 CAAGCTCGTGTCTGTGGGTCCG Star:hsa-miR-99b*:MIMAT0004678 CU-1063 123 CAACACCAGTCGATGGGCTGTA Star:hsa-miR-21*:MIMAT0004494 CU-1070 124 AGGCGGAGACTTGGGCAATT Star:hsa-miR-25*:MIMAT0004498 CU-1060 125 ACTGCATTATGAGCACTTAAAGT Star:hsa-miR-20a*:MIMAT0004493 CU-1078 126 ACTGATTTCTTTTGGTGTTCA Star:hsa-miR-29a*:MIMAT0004503 CU-1020 127 ACTCGGCGTGGCGTCGGTCGTGG Mature:hsa-miR-1307:MIMAT0005951 CU-1041 128 ACCACTGACCGTTGACTGTAC Star:hsa-miR-181a-2*:MIMAT0004558 CU-1048 129 AACTGGCCTACAAAGTCCCAGT Mature:hsa-miR-193a-3p:MIMAT0000459 CU-1136 134 TCGGGCGGGAGTGGTGGCTTT NEW CU-1383 135 TAGAGGCACCGCCTGCCCA NEW CU-1131 136 CGGGGCGCGGCCTCGCTG NEW CU-1135 137 CCCACGGGGGTCTCCGGGCGAG NEW CU-1133 139 CAGCCCGGCCTGGCTCCTCCAT NEW CU-1134 140 CACGGAAGGTGGCCCGG NEW CU-1160 174 TGTCAGTTTGAACCCAA NEW CU-1189 175 TGTAGTGTTTCTTACTTTA NEW CU-1219 176 TGGCGAAGGTCGGCCGCG NEW CU-1190 179 TCGGCTTTCCCTGCTAACTGGGCTTTTT NEW CU-1144 180 TCAGAGCGCGGGCCGACCCC NEW CU-1384 183 TAACCCCAGGGTTGGTCA NEW CU-1171 185 GGGCGTGGGTGTGATGATTC NEW CU-1199 186 GGGAGGTGAGTAGGTCTG NEW CU-1226 187 GGAGACGTGGCCGAGAG NEW CU-1572 188 GCGGAATACCACGGGGA NEW CU-1151 189 GCAGGCGGGGGATTAGCTA NEW CU-1227 190 GCAGCGGAACGTCGGCGCGC NEW CU-1152 192 CTTGGACTAACCTGGTGTA NEW CU-1207 197 CGGTGGAACCTGCATTGGTTT NEW CU-1181 198 CGGGGCCGGGGCTAGGGT NEW CU-1185 199 CGGGCCGCCCCCGCCCACCG NEW CU-1366 201 CGGCCTATCCGGAATGCCCC NEW CU-1145 203 CGCGGCCAGTGTCCCCTTGTA NEW CU-1201 204 CGACACACGGCCCGTGGCGC NEW CU-1172 206 CCTCACTGGGGGCTCCA NEW CU-1217 210 CCGCCCCGACCTTAGCTA NEW CU-1177 214 CCCCGGCATCTCCATCA NEW CU-1360 218 CCACCCTGGAGCCTCCGT NEW CU-1179 221 ATGGCCTGGACCCCACTCCT NEW CU-1161 222 ATGGCCGCATATATTTT NEW CU-1168 225 AGCGAGGGTTCCGCCGGCC NEW CU-1195 226 ACTGGGGAGGGGGAGGAGCCTCGAGG NEW CU-1215 227 ACCCCGAGGGGACGGGCG NEW CU-1208 228 ACAGCGCTGTGTTCCCGT NEW CU-1373 230 AACTAAAACCCCTACGCA NEW CU-1196 231 AAAGGAGCCGAATCTTT NEW CU-1204 224 ATCCTGCTCACAGCCCCA NEW CU-1325 269 TTTGCCACACTGCAACACCTT refseqGeneIntron-annotate CU-1310 271 TTAAACCACCAAGATCGCTGATGCAC refseqGeneIntron-annotate CU-1299 272 TGTTCGCCGACCGTTGA refseqGeneIntron-annotate CU-1165 173 TGTCAGTTTTTACCCAA refseqGeneIntron-annotate CU-1322 274 TGGGAGAGCAGGGTATTGT refseqGeneIntron-annotate CU-1203 177 TGCAGGGCCGGCGGGGAGG refseqGeneIntron-annotate CU-1308 277 TCCGAAAGGCCTCCCGCACCG refseqGeneIntron-annotate CU-1376 181 TCAACACCCACTCCCTC refseqGeneIntron-annotate CU-1138 182 TATCAATGATGCTTCTGAGA refseqGeneIntron-annotate CU-1297 279 TAGATGAATAGGTAAAGAG refseqGeneIntron-annotate CU-1235 280 GTGTATGATGACCTCATGTAGCCTGAAC refseqGeneIntron-annotate CU-1253 281 GTGAAGCGTTCCATATTTTT mRNAaII-annotate;refseqGeneIntron-annotate;rnaGene-annotate CU-1337 283 GGGGGGAGGGAAGGCAA refseqGeneIntron-annotate CU-1316 284 GGGGGCTGGGCTGGGTA refseqGeneIntron-annotate CU-1343 285 GGGGCCGCCGCCTGTGT refseqGeneIntron-annotate CU-1326 286 GGGAGTCCGCGGCGAGC refseqGeneIntron-annotate CU-1286 288 GGCTTGGTCTAGGGGTA refseqGeneIntron-annotate CU-1332 289 GGCTGGGACCCTGGACAC refseqGeneIntron-annotate CU-1262 290 GGCGACCTGCGACTCCTT refseqGeneIntron-annotate CU-1317 292 GGAGGGGGGAAAAAAAAAA computGene-annotate;refseqGeneIntron-annotate CU-1266 295 GCCGGGCGTGGTGGTCTG refseqGeneIntron-annotate CU-1261 296 GCCGCCGAGACCCCAGGACCC refseqGeneIntron-annotate CU-1259 298 GCAAATGATGCCCTCTGATC refseqGeneIntron-annotate CU-1349 299 GAGGGGGGTCAAAAAAA refseqGeneIntron-annotate CU-1272 300 CTTGATGATGAGCAGGATCTGAGT refseqGeneIntron-annotate CU-1313 303 CTGCTTAAGTCCTGACCAG refseqGeneIntron-annotate CU-1157 196 CTGATGTTGATGCATATGATGACA refseqGeneIntron-annotate CU-1296 304 CTGAGCACCTTTCCCTTCC refseqGeneIntron-annotate CU-1245 306 CGGTCACACGATTAACCCA mRNA-annotate;refseqGeneIntron-annotate CU-1319 310 CGGGAGTGGGGTGGCGCCCAG refseqGeneIntron-annotate CU-1569 312 CGGACCTGATAAATTCCCAC refseqGeneIntron-annotate CU-1351 316 CCTTCCTTGGATGTCTGAGTGAG mRNAaII-annotate;refseqGeneIntron-annotate;wgRNA-annotate; rnaGene-annotate CU-1354 317 CCTCGCTGGGGCCTCCA tRNAprefix-annotate;refseqGeneIntron-annotate; CU-1228 321 CCGCCCGTCACCCTCCTCAAGTA mRNA-annotate;refseqGeneIntron-annotate CU-1271 323 CCCGCGGGCTTGCTGGGCGTCCC refseqGeneIntron-annotate CU-1166 213 CCCCGGCCCATGCACCA refseqGeneIntron-annotate; CU-1285 325 CCCCGGCATCTCCACTA refseqGeneIntron-annotate CU-1571 326 CCCCAGTGAGTGCCCTCTTCC refseqGeneIntron-annotate CU-1353 327 CCCAGAGACGCCGTCCTCGA refseqGeneIntron-annotate CU-1347 330 CCACTCCAGCCTAGCCCC refseqGeneIntron-annotate CU-1295 331 CAGTACAGGCACACCTC refseqGeneIntron-annotate CU-1250 333 CACGATTAACCCAAGTC mRNA-annotate;refseqGeneIntron-annotate CU-1311 337 ATACCATGATGAACAATAGCTGAGA refseqGeneIntron-annotate CU-1350 339 AGGCTGTGATGGACCTGGCTGAGCCTG refseqGeneIntron-annotate CU-1252 340 AGAGAGTAGGGGGAGGT refseqGeneIntron-annotate CU-1334 341 ACTGTCCCTGTCTACTA refseqGeneIntron-annotate CU-1340 342 ACCGCATCTGGCCTATTTTT refseqGeneIntron-annotate CU-1342 343 ACCAGACCTCCTGTGCGAAG refseqGeneIntron-annotate CU-1304 344 ACAGCCCGGATCCCAGCCCACTTA refseqGeneIntron-annotate CU-1230 345 ACACTGAGCCACAACCCA refseqGeneIntron-annotate CU-1192 229 ACAAAAAAAAAAGCCCAACCCT refseqGeneIntron-annotate CU-1312 346 AAGGGCTTGGCTTAATTA refseqGeneIntron-annotate CU-1255 347 AACCCGGAAGGCGGAGGTTGCGG computGene-annotate;refseqGeneIntron-annotate CU-1346 349 CAAAAGCTTCTTTGACGTCCCATCCAC refseqGeneIntron-annotate CU-1573 359 TGCCGTGATCGTATAGTGGTTA piRNA-annotate CU-1395 362 CTGACAGCCGGGGTTTTGGA computGene-annotate CU-1365 363 CGGCGGGGCCTGGAGTCTG mRNAaII-annotate;computGene-annotate;exEID-annotate CU-1375 364 CCTGGCTCGCTGCGCCA computGene-annotate CU-1209 207 CCTCACCTGGAGCACCA tRNAprefix-annotate; CU-1174 366 CCCGAACGCTGCCAACCC exEID-annotate CU-1214 215 CCCCAGTACCTCCACCA tRNAprefix-annotate; CU-1218 223 ATCCTGTTCGTGACGCCA tRNAprefix-annotate; CU-1385 367 AGACCCGCGGGCGCTCTCCAGTC rnaGene-annotate

TABLE 7 (PART B) List of known and newly identified bona fide and candidate mature miRNAs. Counts and anno- tations are provided for all candidate miRNA. Frequencies have been calculated only for bona fide miRNA (cloned at least 2 times in the B cell libraries). Corrected Counts Frequencies SEQ ID Naïve Memory Centroblasts Ramos Naïve Memory Centroblasts Ramos Mature miRNA sequence NO. (N) (M) (CB) (RA) (N) (M) (CB) (RA) TGTAGTGTTTCCTACTTTATGGA 1 1329 592 635 391 40.74 21.5 25.55 17.89 TAGCTTATCAGACTGATGTTGA 2 196 353 144 13 6.01 12.82 5.79 0.59 TAAAGTGCTTATAGTGCAGGTAG 3 54 19 49.82 257.89 1.66 0.69 2 11.8 TAGCAGCACATCATGGTTTACA 4 38 61 176.84 105 1.16 2.21 7.12 4.8 TAGCAGCACGTAAATATTGGCG 5 131 97 53 35 4.02 3.52 2.13 1.6 TGAGGTAGTAGGTTGTATAGTT 6 62.84 78.99 92.19 63.25 1.93 2.87 3.71 2.89 TATTGCACTTGTCCCGGCCTGT 7 17 21 46 207 0.52 0.76 1.85 9.47 TCCCACCGCTGCCACCA 8 68 97 25 28 2.08 3.52 1.01 1.28 TGAGGTAGTAGATTGTATAGTT 9 41.28 44 64 51.38 1.27 1.6 2.58 2.35 TAGCACCATCTGAAATCGGTTA 10 78 60 42 22 2.39 2.18 1.69 1.01 TAGCAGCACATAATGGTTTGT 11 90 39 32.16 8 2.76 1.42 1.29 0.37 CCCATAAAGTAGAAAGCACTA 12 88 53 7 10 2.7 1.92 0.28 0.46 TGAGGTAGTAGTTTGTACAGTT 13 41.28 47 30.77 21.16 1.27 1.71 1.24 0.97 TGAGGTAGTAGTTTGTGCTGTT 14 23 24 32 42 0.71 0.87 1.29 1.92 TAGCACCATTTGAAATCGGTTA 15 44 41 16 1 1.35 1.49 0.64 0.05 TGTAAACATCCTACACTCTCAGC 16 27 25 26 20 0.83 0.91 1.05 0.91 CAAAGTGCTTACAGTGCAGGTAG 17 9 6 10.18 65.04 0.28 0.22 0.41 2.98 CATTGCACTTGTCTCGGTCTGA 18 11 9 34 39 0.34 0.33 1.37 1.78 CAACGGAATCCCAAAAGCAGCTG 19 17 21 36 18 0.52 0.76 1.45 0.82 TGTGCAAATCCATGCAAAACTGA 20 0 1 25 65 0 0.04 1.01 2.97 TACCACAGGGTAGAACCACGGA 21 31 22 17 21 0.95 0.8 0.68 0.96 TGTAAACATCCTACACTCAGCT 22 31 11 27 16 0.95 0.4 1.09 0.73 TGAGGTAGTAGGTTGTGTGGTT 23 19.48 19 29 5.08 0.6 0.69 1.17 0.23 TAGCACCATTTGAAATCAGTGTT 24 22 14 12 4 0.67 0.51 0.48 0.18 TAAAGTGCTGACAGTGCAGAT 25 7 6 13 26 0.21 0.22 0.52 1.19 TCCCTGTCCTCCAGGAGCTC 26 6 3 3 32 0.18 0.11 0.12 1.46 TTCAAGTAATCCAGGATAGGCT 27 2 8 13 16 0.06 0.29 0.52 0.73 CAAAGTGCTGTTCGTGCAGGTAG 28 9 2 13 14 0.28 0.07 0.52 0.64 TGTCAGTTTGTCAAATACCCCA 29 25 10 1 0 0.77 0.36 0.04 0 TGAGAACTGAATTCCATGGGTT 30 4 7 21 4 0.12 0.25 0.85 0.18 TCTCCCAACCCTTGTACCAGT 31 12 18 2 0 0.37 0.65 0.08 0 TCCCTGAGACCCTAACTTGTGA 32 0 1 28 2 0 0.04 1.13 0.09 TCTCACACAGAAATCGCACCCGT 33 10 8 8 3 0.31 0.29 0.32 0.14 C GTCCCTGTTCGGGCGCCA 34 12 10 6 1 0.37 0.36 0.24 0.05 TGTGCAAATCTATGCAAAACTGA 35 0 0 9 19 0 0 0.36 0.87 TGTAAACATCCCCGACTGGAAG 36 7 3 14 3 0.21 0.11 0.56 0.14 AGCTACATTGTCTGCTGGGTT 37 17 6 4 0 0.52 0.22 0.16 0 AGAGGTAGTAGGTTGCATAGTT 38 2 4 10 10 0.06 0.15 0.4 0.46 CCGCACTGTGGGTACTTGCT 39 8 6 2 8 0.25 0.22 0.08 0.37 AGCAGCATTGTACAGGGCTATGA 40 1 1 10 11 0.03 0.04 0.4 0.5 AACTGGCCCTCAAAGTCCCGCT 41 0 0 2 21 0 0 0.08 0.96 GCCCCTGGGCCTATCCTAGAA 42 1 0 10 10 0.03 0 0.4 0.46 AGCTGGTGTTGTGAATCAGGCCG 43 0 0 15 5 0 0 0.6 0.23 T TGAGGGGCAGAGAGCGAGACTT 44 5 1 7 4 0.15 0.04 0.28 0.18 AGCTACATCTGGCTACTGGGTCT 45 6 6 5 0 0.18 0.22 0.2 0 GTGGGGGAGAGGCTGTA 46 2 6 3 5 0.06 0.22 0.12 0.23 CTATACGACCTGCTGCCTTTC 47 6 3 4 1 0.18 0.11 0.16 0.05 TTAATGCTAATCGTGATAGGGGT 48 3 4 5 1 0.09 0.15 0.2 0.05 AGGGGGAAAGTTCTATAGTC 49 0 2 0 11 0 0.07 0 0.5 ACAGTAGTCTGCACATTGGTT 50 0 0 13 0 0 0 0.52 0 AACATTCAACGCTGTCGGTGAGT 51 0 0 7 6 0 0 0.28 0.27 T TGGAAGACTAGTGATTTTGTTGT 52 1 1 1 8 0.03 0.04 0.04 0.37 TAATGCCCCTAAAAATCCTTAT 53 0 0 6 4 0 0 0.24 0.18 TAGCAGCACAGAAATATTGGCA 54 4 0 5 0 0.12 0 0.2 0 TGAGGTAGTAGGTTGTAT 55 0.11 0.01 0.01 0.13 0 0 0 0.01 TCCTGTACTGAGCTGCCCCGAG 56 0 0 7 1 0 0 0.28 0.05 TCCCTGAGACCCTTTAACCTGTG 57 0 0 8 0 0 0 0.32 0 A ATCACATTGCCAGGGATTTCCA 58 0 0.5 7 0 0 0.02 0.28 0 TCACAGTGAACCGGTCTCTTT 59 1 0 0 6 0.03 0 0 0.27 CACTAGATTGTGAGCTCCTGGA 60 2 0 4 1 0.06 0 0.16 0.05 CAACAAATCACAGTCTGCCAT 61 3 0 1 3 0.09 0 0.04 0.14 CAAAGTGCTTATAGTGCAGGTAG 62 0 1 1 0.08 0 0.04 0.04 0 AGGTTGGGATCGGTTGCAATGCT 63 0 0 0 7 0 0 0 0.32 ACATTCATTGCTGTCGGTGGGTT 64 0 0 1 6 0 0 0.04 0.27 AATGACACGATCACTCCCGTTGA 1095 0 0 7 0 0 0 0.28 0 G TCCCCCAGGTGTGATTCTGATT 65 4 1 0 1 0.12 0.04 0 0.05 CCCAGTGTTCAGACTACCTGTTC 66 0 0 6 0 0 0 0.24 0 ACCAATATTACTGTGCTGCTT 67 1 1 2 2 0.03 0.04 0.08 0.09 TGTAAACATCCTTGACTGGAAGC 68 2 0 3 0 0.06 0 0.12 0 T TAAGGTGCATCTAGTGCAGATA 69 0 0 1 4 0 0 0.04 0.18 ATCACATTGCCAGGGATTACCA 70 0 0.5 3 1 0 0.02 0.12 0.05 ACTGCCCTAAGTGCTCCTTCTG 71 0 0 0 5 0 0 0 0.23 TGTAAACATCCTCGACTGGA 72 1 0 3 0 0.03 0 0.12 0 TACAGTACTGTGATAACTGAAG 73 1 0 0 3 0.03 0 0 0.14 CTAGACTGAAGCTCCTTGAGG 74 2 1 1 0 0.06 0.04 0.04 0 TGGGTTGAGAGGGCGAA 1094 1 0 1 1 0.03 0 0.04 0.05 TGGCAGTGTCTTAGCTGGTTGTT 75 0 1 2 0 0 0.04 0.08 0 TGAGGTAGTAAGTTGTATTGTT 76 0 1 1 1 0 0.04 0.04 0.05 TGAGAACTGAATTCCATAGGCTG 77 1 0 2 0 0.03 0 0.08 0 T TCGAGGAGCTCACAGTCTAGTA 78 1 0 1 1 0.03 0 0.04 0.05 AGCTCGGTCTGAGGCCCCTCAG 79 0 0 2 1 0 0 0.08 0.05 ACTGCAGTGAAGGCACTTGTAG 80 0 0 0 3 0 0 0 0.14 ACCATCGACCGTTGATTGTA 81 0 1 0 2 0 0.04 0 0.09 TTCACCACCTTCTCCACCCAG 82 0 0 0 2 0 0 0 0.09 TTCACAGTGGCTAAGTTCTG 83 0 0 2 0 0 0 0.08 0 TTCAAGTAATTCAGGATAGGTT 84 0 0 1 1 0 0 0.04 0.05 TGGGTTTACGTTGGGAGAACT 85 0 0 0 2 0 0 0 0.09 TGAGGTAGGAGGTTGTATAGTT 87 0 0 1.02 0 0 0 0.04 0 TGACCGATTTCTCCTGGTGTT 88 2 0 0 0 0.06 0 0 0 TATTGCACTCGTCCCGGCC 89 0 0 1 1 0 0 0.04 0.05 GGGGTGCTATCTGTGATTGA 90 2 0 0 0 0.06 0 0 0 GCATGGGTGGTTCAGTGGTAGAA 91 0 0 2 0 0 0 0.08 0 CTGGCCCTCTCTGCCCTT 92 0 0 1 1 0 0 0.04 0.05 CTGACCTATGAATTGACAGC 93 0 0 0 2 0 0 0 0.09 CTCCTGACTCCAGGTCCTGTG 94 0 0 0 2 0 0 0 0.09 CGTCAACACTTGCTGGTT 95 0 0 1 1 0 0 0.04 0.05 CGAATCATTATTTGCTGCTCT 96 0 0 1 1 0 0 0.04 0.05 CATCGGGAATGTCGTGTCCGCC 97 0 2 0 0 0.07 0 0 CAGTGGTTTTACCCTATGGTA 98 0 0 1 1 0 0 0.04 0.05 CAGTGCAATGATGAAAGGGCAT 99 0 0 2 0 0 0 0.08 0 CAGCAGCACACTGTGGTTTGT 100 0 0 2 0 0 0 0.08 0 CACGCTCATGCACACACCCAC 101 0 0 2 0 0 0 0.08 0 AAGGAGCTCACAGTCTATTGAG 102 0 0 2 0 0 0 0.08 0 GCCGGGTACTTTCGTATTTT 131 3 3 0 34 0.09 0.11 0 1.56 GCTAAGGAAGTCCTGTGCTCAGT 132 0 0 1 19 0 0 0.04 0.87 TTT AGGGTGTGCGTGTTTTT 148 0 0 0 20 0 0 0 0.91 GAGAGCGCTCGGTTTTT 150 0 0 1 9 0 0 0.04 0.41 TGGTGTGGTCTGTTGTTTT 151 0 0 0 9 0 0 0 0.41 TGTGCTCCGGAGTTACCTCGTTT 152 0 0 0 8 0 0 0 0.37 AACCGAGCGTCCAAGCTCTTTCC 155 0 0 0 5 0 0 0 0.23 ATTTT TCCCCGCACCTCCACCA 156 0 2 1 1 0 0.07 0.04 0.05 GGCGTGATTCATACCTTTT 162 0 0 0 2 0 0 0 0.09 ATGTGGTGGCTTACTTTT 169 0 0 0 2 0 0 0 0.09 AGAAAGGCCGAATTTTA 172 0 0 1 1 0 0 0.04 0.05 TCCCCGGCACTTCCACCA 157 0 3 0 0 0 0.11 0 0 CCCACCCAGGGACGCCA 232 223 218 6 2 6.84 7.92 0.24 0.09 TCCCCGGCACCTCCACCA 233 60.47 101.82 40.28 34 1.85 3.7 1.62 1.56 ATCCCGGACGAGCCCCCA 234 48 60 80 45 1.47 2.18 3.22 2.06 CCCCCCACTGCTAAATTTGACTG 142 18 8 61 22 0.55 0.29 2.45 1.01 GCTT TCGATTCCCGGCCAATGCACCA 236 4 18 36 4 0.12 0.65 1.45 0.18 ATCCCACTTCTGACACCA 237 11 9 26.69 14 0.34 0.33 1.07 0.64 TCCCCGTACGGGCCACCA 239 11 6 3 2 0.34 0.22 0.12 0.09 AGTCCCATCTGGGTCGCCA 243 4 2 3 6 0.12 0.07 0.12 0.27 CCCCCCACTGCTAAATTTGACTG 244 1 1 6 2 0.03 0.04 0.24 0.09 GA GTCCCTTCGTGGTCGCCA 246 1 2 1 2 0.03 0.07 0.04 0.09 TCCTCACACGGGGCACCA 248 2 1 2 0 0.06 0.04 0.08 0 TAACGGCCGCGGTACCC 249 0 3 1 0 0 0.11 0.04 0 GAGGGGGACCAAAAAAAA 250 0 0 0 4 0 0 0 0.18 CCCGGGTTTCGGCACCA 133 0 3 0 1 0 0.11 0 0.05 ATAGGTTTGGTCCTAGCCTTTCT 354 0 0 3 1 0 0 0.12 0.05 AGGGGGGTAAAAAAAAA 252 0 0 0 4 0 0 0 0.18 GAGCCATGATGATACCACTGAGC 254 0 1 0 2 0 0.04 0 0.09 AGAACACTACGAGCCACA 257 3 0 0 0 0.09 0 0 0 ACCCCACTTCTGGTACCA 258 0 0 1 2 0 0 0.04 0.09 TCTCGGTGGAACCTCCA 260 0 0 1 1 0 0 0.04 0.05 TACCGAGCCTGGTGATAGC 262 0 1 1 0 0 0.04 0.04 0 GCAGCGCCAGCCTCCCGCCCTA 263 2 0 0 0 0.06 0 0 0 C ATCCCCAGCACCTCCACCA 265 0 0 0 2 0 0 0 0.09 AGCAGTGATGTCCTGAAAATTCT 266 0 0 0 2 0 0 0 0.09 GAAG ACCCCACTATGCTTAGCCCT 267 0 0 2 0 0 0 0.08 0 AAAGGACCTGGCGGTGCTTC 268 1 0 1 0 0.03 0 0.04 0 TCCCCGGCATCTCCACCA 350 116.53 75.18 104.72 59 3.57 9.99 4.21 2.7 GCCCGCATCCTCCACCA 143 38 61 2 4 1.16 2.21 0.08 0.18 ATCCCACTCCTGACACCA 145 7 13 11.31 3 0.21 0.47 0.46 0.14 TCGATTCCCGGCCCATGCACCA 149 1 2 10 4 0.03 0.07 0.4 0.18 TCCCCGACACCTCCACCA 153 2 2 2 1 0.06 0.07 0.08 0.05 TCTAGAGGAGCCTGTTCTGTA 352 0 1 3 0 0 0.04 0.12 0 TCGATTCCCGGTCAGGGAACCA 353 0 0 0 4 0 0 0 0.18 TCACCCCATAAACACCA 158 2 1 0 0 0.06 0.04 0 0 CGTTCGCGCTTTCCCCTG 355 0 1 2 0 0 0.04 0.08 0 TTCCCCGACGGGGAGCCA 161 1 0 0 1 0.03 0 0 0.05 TAAGTGTTTGTGGGTTA 356 1 1 0 0 0.03 0.04 0 0 ATCCCCAGCATCTCCACCA 171 0 0 2 0 0 0 0.08 0 CCCCCACAACCGCGCTTGACTAG 368 12 11 7 9 0.37 0.4 0.28 0.41 C CCCTGCTCGCTGCGCCA 369 7 20 5 1 0.21 0.73 0.2 0.05 CTCCCACTGCTTCACTTGACTAG 370 2 2 18 9 0.06 0.07 0.72 0.41 C TCACGTCGGGGTCACCA 372 16 4 5 1 0.49 0.15 0.2 0.05 TCCCTGGTGGTCTAGTGGTTAGG 373 0 1 10 6 0 0.04 0.4 0.27 ATTCG TCCTGCCGCGGTCGCCA 375 6 8 0 1 0.18 0.29 0 0.05 GGAGAGAACGCGGTCTGAGTGG 376 3 7 1 0 0.09 0.25 0.04 0 T TCGGGTGCGAGAGGTCCCGGGT 377 0 0 0 10 0 0 0 0.46 GGCTGGTCCGATGGTAGTGGGTT 378 4 3 3 0 0.12 0.11 0.12 0 CGGAAGCGTGCTGGGCCC 379 1 5 0 4 0.03 0.18 0 0.18 GCGGGTGATGCGAACTGGAGTCT 381 0 0 6 1 0 0 0.24 0.05 GAGC GACGAGGTGGCCGAGTGG 382 2 3 2 0 0.06 0.11 0.08 0 CTGATTGCTCCTGTCTGATT 351 0 0 6 1 0 0 0.24 0.05 CTCCTGGCTGGCTCGCCA 384 0 0 3 3 0 0 0.12 0.14 GGCTGGTCCGAGTGCAGTGGTG 386 0 1 4 0 0 0.04 0.16 0 TTTA CTGCTGTGATGACATTC 387 1 2 2 0 0.03 0.07 0.08 0 TCCTCGTTAGTATAGTGGTGAGT 389 0 1 3 0 0 0.04 0.12 0 ATCCC GCATTGGTGGTTCAGTGGTAGA 391 0 0 3 1 0 0 0.12 0.05 TTCTCACTACTGCACTTGACTA 395 0 0 2 1 0 0 0.08 0.05 TGGTTATCACGTTCGCC 396 0 2 0 1 0 0.07 0 0.05 TAGGGGTATGATTCTCGCT 397 1 0 0 2 0.03 0 0 0.09 CGTCCATGATGTTCCGCAA 255 1 0 2 0 0.03 0 0.08 0 CCACGAGGAAGAGAGGTAGC 398 2 1 0 0 0.06 0.04 0 0 TGTATTGTGAGACATTC 259 0 1 1 0 0 0.04 0.04 0 GTCAGGATGGCCGAGCGGTCT 399 0 1 1 0 0 0.04 0.04 0

A sizeable number of sequences (334) aligned to genomic regions that did not fulfill the criteria for miRNA precursors (FIG. 24). About 80% of these sequences were annotated or cloned only once and may represent degradation products originating from other RNA species (FIG. 24 and Table 8). The remaining (58 sequences), however, mapped to genomic regions that lack annotations and may therefore represent a part of the transcriptome whose functions are unknown (Table 9 and Table 10). Interestingly, several of these nonannotated sequences (i.e., CU-5004, CU-5021, CU-6030, CU-6069) were cloned multiple times and showed differential expression across libraries (Table 9 and Table 10), suggesting that they may represent short RNAs with characteristics distinct from those currently recognized in “classic” miRNAs.

In conclusion, the generation of short-RNA libraries from normal and neoplastic B cells led to the identification of 178 mature miRNAs cloned multiple times as well as other short-RNA species of unknown function.

TABLE 8 Characterization of short-RNA libraries. RNA species Naïve Memory Centroblasts Ramos Total Total (non redundant) 680 709 740 740 2086 miRNA 424 408 528 538 1259 miRNA other* 1 0 3 0 4 tRNA 27 33 32 29 108 rRNA 61 99 34 16 174 mRNA 76 72 25 34 176 snoRNA 8 13 15 6 40 yRNA 11 11 31 21 53 piRNA 46 54 70 62 148 Repeats 1 1 0 1 2 Mitochondrial genome 12 36 54 11 101 Human viruses 1 4 0 0 5 E. Coli 5 4 0 0 7 Not Annotated 111 119 97 134 375 Number of not redundant short-RNAs cloned in each library (naïve B cells, memory B cells, centroblasts and Ramos cell line) and overall (total). Each short-RNA is annotated according to the listed RNA species. Results shown here refer only to short-RNA with matches to the human genome. The same short-RNA might match to multiple databases and therefore the overall sum does not correspond to the total number of short-RNAs. *miRNA other: includes fragments of miRNA precursors, not mature. The databases used in this analysis are detailed in Supplementary Methods.

TABLE 9 (PART A) List of short-RNA lacking genomic locations with appropriate RNA secondary structures to be defined miRNAs. Table includes information on genomic locations and annotations. SEQ ID ID NO: Short-RNA sequence Annotations CU-5004 1096 GAAGCGGGTGCTCTTATTTT NEW CU-5008 1097 GTGTAAGCAGGGTCGTTTT NEW CU-6003 1098 ATCCCACCGCTGCTACCA NEW CU-5023 1099 GGGAAGGTGACCTGAC NEW CU-5007 1100 CTCCCGCCTTTTTTCCC NEW CU-5024 1101 CGGAGCAAGAGCGT NEW CU-5026 1102 CCCCCGGCACCATCAATA NEW CU-5027 1103 CAGCCTAGCCCCTACCC NEW CU-5005 1104 CAGAAGGTCTCACTTTT NEW CU-5006 1105 AGTATTCTCTGTGGCTTT NEW CU-5028 1106 TGGAGTGACTATATGGATGCCCCC NEW CU-5029 1107 TCTGATAGCTTACTTT NEW CU-5030 1108 TCGAGCCCCAGTGGAACCAC NEW CU-5032 1109 TCCTCCCCACACTCATCGCCCTTACCA NEW CU-5033 1110 TATACTACAAGGACACCA NEW CU-5034 1111 TAGTGGGTGAAAAAAAAAAAA NEW CU-5035 1112 TACCACACATTCGAAGAACCCGTA NEW CU-5036 1113 TACAAAACCCACCCCATTCCTCCCCA NEW CU-5019 1114 GGAGGGGGGGTAAAAAAAA NEW CU-5037 1115 GCCCTCCTAATGACCTCC NEW CU-5038 1116 CTTCCCTCTACACTTATCATC NEW CU-5039 1117 CGGGCGGCCTGCGCTCTCA NEW CU-5040 1118 CCCGAGGCCGTGTGCAAATGCAT NEW CU-5020 1119 CCCCGGCATCTCCACC NEW CU-5041 1120 CCCCCAGTACCTCCACCA NEW CU-5042 1121 CCCCCACTGCTAAACTTGACTGGCTTT NEW CU-5043 1122 CCCACTCCACCTTACTACCA NEW CU-5044 1123 CCCAAGAACAGGGTGACCA NEW CU-5045 1124 CCAGTCGCGGCCAAATCA NEW CU-5046 1125 CCAGCTTCACCAAGGTATTGGTTA NEW CU-5047 1126 CCAGAAAAAACAGGCCTC NEW CU-5048 1127 CATCATAATCGGAGGCTTTGGCAAC NEW CU-5049 1128 CAGCAGGGGTAATAAGTGAAATCAAA NEW CU-5050 1129 CAATGGTGCAGCCGCTATTAAAGGTTCA NEW CU-5051 1130 CAACTCCTACATACTTCCCCC NEW CU-5053 1131 ATGCATCTCATATGCGAATAGGAATGC NEW CU-5054 1132 ATCCCACTTCTGTACCA NEW CU-5055 1133 ATAACACTAGAAAGTTGGGGCAGATTGC NEW CU-5056 1134 ACGTGGGCACATTACCCGTCTGACCTGA NEW CU-5057 1135 ACCCCTTATTAACCCA NEW CU-5058 1136 ACAAGGCACACCTACACCCCTTATCCC NEW CU-5059 1137 AAAAGACACCCCCCCACCA NEW CU-5060 1138 AAAACCCCTACGCATTTATAT NEW CU-5061 1139 AAAAAGACACCCCCCACCA NEW CU-5011 1140 GCTAAACCTAGCCCCAAACCC piRNA-annotate; refseqGeneIntron-annotate CU-5003 1141 ACCCCACTCCTGGTACCA refseqGeneIntron-annotate CU-5009 1142 TGCCCCCATGTCTAACAACATGGCTA refseqGeneIntron-annotate; rnaGene-annotate CU-5062 1143 CCCCGCCTGTTTACC refseqGeneIntron-annotate CU-5063 1144 CCCACTTCTGACACCA computGene-annotate; refseqGeneIntron-annotate; exEID-annotate CU-5064 1145 CACCACCTCTTGCTCAGCC mRNA-annotate; refseqGeneIntron-annotate CU-5014 1146 CTGGAAAGTGCACTTGGACGAACA refseqGeneIntron-annotate CU-5065 1147 TGACCGCTCTGACCAC refseqGeneIntron-annotate CU-5066 1148 TGAAGTCCCTTTGCTTTGTT refseqGeneIntron-annotate CU-5067 1149 TGAACACACAATAGCTAAGACCC mRNA-annotate; refseqGeneIntron-annotate CU-5068 1150 TCGCCTTACCCCCCACTA refseqGeneIntron-annotate CU-5069 1151 TCGATAAACCCCGATCAACCT mRNA-annotate; refseqGeneIntron-annotate CU-5070 1152 TCCCCGTCACCTCCACCA refseqGeneIntron-annotate CU-5071 1153 TCCCCGGCACTCCACCA refseqGeneIntron-annotate CU-5072 1154 TCCCCCCGCTGCCACCA refseqGeneIntron-annotate CU-5073 1155 TCCCCCCCATCTCCACCA refseqGeneIntron-annotate CU-5074 1156 TACACACCGCCCGTCACCC mRNA-annotate; refseqGeneIntron-annotate CU-5076 1157 GCTTAGCCTAGCCACACCCCCACG mRNA-annotate; refseqGeneIntron-annotate CU-5077 1158 GCTCGCCAGAACACTACGA mRNA-annotate; refseqGeneIntron-annotate CU-5078 1159 GCCGGGGGGCGGGCGCA refseqGeneIntron-annotate CU-5079 1160 GAACCGGGCGGGAACACCA refseqGeneIntron-annotate CU-5080 1161 CGCCGCAGTACTGATCATTC refseqGeneIntron-annotate CU-5081 1162 CCGCACCAATAGGATCCTCC refseqGeneIntron-annotate CU-5082 1163 CCCGGCCGACGCACCA refseqGeneIntron-annotate CU-5083 1164 CCACCCCATCATACTCTTTC refseqGeneIntron-annotate CU-5084 1165 CACCCCCCAGCTCCTCCTTT refseqGeneIntron-annotate CU-5085 1166 ATAAGTAACATGAAAACATTCTCCTC refseqGeneIntron-annotate CU-5086 1167 ACTGCTCGCCAGAACAC mRNA-annotate; refseqGeneIntron-annotate CU-5087 1168 ACCCTGGTGTGGGATCTGCCCGATC refseqGeneIntron-annotate CU-5088 1169 AACCTCACCACCTCTTTCT refseqGeneIntron-annotate CU-5089 1170 AAAAGACACCCCCCACACCA refseqGeneIntron-annotate CU-5021 1171 ACCGGGCGGAAACACCA tRNAprefix-annotate CU-5022 1172 TCCCGGGTTCAAATCCCGGACGAGCCCCCA tRNAprefix-annotate CU-5010 1173 GGCCGTGATCGTATA piRNA-annotate CU-5025 1174 CCCCGTACTGGCCACCA tRNAprefix-annotate CU-5090 1175 TGGGATGCGAGAGGTCCCGGGT rnaGene-annotate CU-5031 1176 TCGAATCCTGTTCGTGACGCCA tRNAprefix-annotate CU-5091 1177 CTGAACTCCTCACACCC piRNA-annotate CU-5052 1178 ATTCAAAAAAGAGTACCA tRNAprefix-annotate CU-5092 1179 ATTAATCCCCTGGCCCAACCCG computGene-annotate CU-5093 1180 AGCCCCAAACCCACTCCAC piRNA-annotate CU-5094 1181 CGCGACCTCAGATCAGAC rRNA-eliminate; piRNA-annotate; refseqGeneIntron-annotate CU-5013 1182 GGCCGGTGATGAGAACT mRNAall-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate; wgRNA-annotate; snoRNA-annotate CU-5015 1183 TCAAGTGATGTCATCTTACTACTGAGA mRNAall-annotate; snoRNA-annotate; refseqGeneExon-eliminate; rnaGene-annotate; refseqGeneIntron-annotate; snoRNA-eliminate; wgRNA-annotate CU-5095 1184 TTGGGTGCGAGAGGTCCCGGGT tRNAcomputational-annotate; tRNA-eliminate; HStRNA-eliminate; rnaGene-annotate CU-5096 1185 TCTCGGTGGGACCTCCA tRNAprefix-annotate; refseqGeneExon-eliminate CU-5097 1186 CCGCCCCCCGTTCCCCC rRNA-eliminate CU-5098 1187 CCCACTGCTAAATTTGACTGGCTT mRNAall-annotate; yRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-5099 1188 ACAGACCAAGAGCCTTC tRNA-eliminate; rnaGene-annotate CU-5100 1189 TGTAGTAGTCAATTAATGGATATTA refseqGeneExon-eliminate CU-5101 1190 TGGTTATCACGTTCGCCTCACACGCGA tRNAcomputational-annotate; tRNA-eliminate; HStRNA-eliminate; rnaGene-annotate CU-5102 1191 TGGGAATACCGGGTG rRNA-eliminate; rnaGene-annotate; piRNA- annotate; refseqGeneIntron-annotate CU-5103 1192 TGGCGGCCAAGCGTTCATAGCGACGTC rRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-5104 1193 TCGTCATCCAGCTAAGGGCTCAGA mRNAall-annotate; refseqGeneExon-eliminate; exEID-annotate CU-5105 1194 TCGCCTGCCACGCGGGAGGCCCGGGT rnaGene-annotate; tRNAcomputational-annotate; tRNA-eliminate; refseqGeneIntron-annotate; mRNA-annotate; HStRNA-eliminate CU-5106 1195 TCCCACTGCTTCACTTGA yRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-5107 1196 GTTTAGACGGGCTCACATCACCCCA tRNA-eliminate; piRNA-annotate; refseqGeneIntron-annotate CU-5075 1197 GGCCGGTGATGAGAACTTCTCCC mRNAall-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate; wgRNA-annotate; snoRNA-annotate CU-5108 1198 GCTAACTCATGCCCCCATGTC tRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-5109 1199 GACTGTGGTGGTTGAATATA mRNAall-annotate; computGene-annotate; refseqGeneExon-eliminate; exEID-annotate CU-5110 1200 CGCGACCTCAGATCAGACGTGGCGACC rRNA-eliminate; piRNA-annotate; refseqGeneIntron-annotate CU-5111 1201 CGCCGCCGCCCCCCC mRNAall-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate; exEID-annotate CU-5112 1202 CGCCCGACTACCACCACATCCA mRNAall-annotate; computGene-annotate; refseqGeneExon-eliminate; exEID-annotate CU-5113 1203 CCCCCCTCCACGCGCCC rRNA-eliminate; refseqGeneIntron-annotate CU-5114 1204 CCCCACCCCGCGCCCTC rRNA-eliminate; refseqGeneIntron-annotate CU-5115 1205 CAGAGTGTAGCTTAACACAAAGCACCCAA tRNA-eliminate; piRNA-annotate; rnaGene- annotate CU-5116 1206 CAATCTTGGCATGTTGGTCTGGTCACCCA mRNAall-annotate; refseqGeneExon-eliminate; exEID-annotate CU-5117 1207 CAAAGCATCGCGAAGGCCC mRNAall-annotate; rRNA-eliminate; piRNA- annotate; rnaGene-annotate CU-5118 1208 AACACCCTGATTGCTCCTGTCTGAT mRNAall-annotate; exEID-annotate; snoRNA- annotate; refseqGeneExon-eliminate; rnaGene- annotate; snoRNA-eliminate; wgRNA-annotate CU-5119 1209 AAAAAGGGCCTAAAGAAGATGCA mRNAall-annotate; computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron- annotate; exEID-annotate

TABLE 9 (PART B) List of short-RNA lacking genomic locations with ap- propriate RNA secondary structures to be defined miRNAs. Table includes information on counts. Corrected Counts SEQ ID Naïve Memory Centroblasts Ramos NO: Short-RNA sequence (N) (M) (CB) (RA) 1210 GAAGCGGGTGCTCTTATTTT 5 23 25 224 1211 GTGTAAGCAGGGTCGTTTT 0 0 0 7 1212 ATCCCACCGCTGCTACCA 0 1 0 2 1213 GGGAAGGTGACCTGAC 2 0 0 0 1214 CTCCCGCCTTTTTTCCC 0 2 0 0 1215 CGGAGCAAGAGCGT 2 0 0 0 1216 CCCCCGGCACCATCAATA 0 0 1 1 1217 CAGCCTAGCCCCTACCC 0 2 0 0 1218 CAGAAGGTCTCACTTTT 0 1 0 1 1219 AGTATTCTCTGTGGCTTT 0 0 0 2 1220 TGGAGTGACTATATGGATGCCCCC 0 0 1 0 1221 TCTGATAGCTTACTTT 0 1 0 0 1222 TCGAGCCCCAGTGGAACCAC 0 0 1 0 1223 TCCTCCCCACACTCATCGCCCTTACCA 0 0 1 0 1224 TATACTACAAGGACACCA 0 0 0 1 1225 TAGTGGGTGAAAAAAAAAAAA 0 0 0 1 1226 TACCACACATTCGAAGAACCCGTA 0 0 1 0 1227 TACAAAACCCACCCCATTCCTCCCCA 0 1 0 0 1228 GGAGGGGGGGTAAAAAAAA 0 0 1 0 1229 GCCCTCCTAATGACCTCC 0 0 1 0 1230 CTTCCCTCTACACTTATCATC 0 0 1 0 1231 CGGGCGGCCTGCGCTCTCA 1 0 0 0 1232 CCCGAGGCCGTGTGCAAATGCAT 0 0 1 0 1233 CCCCGGCATCTCCACC 1 0 0 0 1234 CCCCCAGTACCTCCACCA 0 1 0 0 1235 CCCCCACTGCTAAACTTGACTGGCTTT 0 0 1 0 1236 CCCACTCCACCTTACTACCA 0 0 0 1 1237 CCCAAGAACAGGGTGACCA 0 0 0 1 1238 CCAGTCGCGGCCAAATCA 0 1 0 0 1239 CCAGCTTCACCAAGGTATTGGTTA 0 0 1 0 1240 CCAGAAAAAACAGGCCTC 0 0 0 1 1241 CATCATAATCGGAGGCTTTGGCAAC 0 0 1 0 1242 CAGCAGGGGTAATAAGTGAAATCAAA 0 0 1 0 1243 CAATGGTGCAGCCGCTATTAAAGGTTCA 0 0 0 1 1244 CAACTCCTACATACTTCCCCC 1 0 0 0 1245 ATGCATCTCATATGCGAATAGGAATGC 0 0 1 0 1246 ATCCCACTTCTGTACCA 0 1 0 0 1247 ATAACACTAGAAAGTTGGGGCAGATTG 0 0 1 0 C 1248 ACGTGGGCACATTACCCGTCTGACCTG 0 0 0 1 A 1249 ACCCCTTATTAACCCA 0 1 0 0 1250 ACAAGGCACACCTACACCCCTTATCCC 0 0 1 0 1251 AAAAGACACCCCCCCACCA 0 0 0 1 1252 AAAACCCCTACGCATTTATAT 0 0 1 0 1253 AAAAAGACACCCCCCACCA 0 0 0 1 1254 GCTAAACCTAGCCCCAAACCC 9 16 13 18 1255 ACCCCACTCCTGGTACCA 1 11 5 6 1256 TGCCCCCATGTCTAACAACATGGCTA 7 4 1 1 1257 CCCCGCCTGTTTACC 0 5 2 0 1258 CCCACTTCTGACACCA 3 4 0 0 1259 CACCACCTCTTGCTCAGCC 1 3 0 0 1260 CTGGAAAGTGCACTTGGACGAACA 0 2 0 0 1261 TGACCGCTCTGACCAC 0 1 0 0 1262 TGAAGTCCCTTTGCTTTGTT 1 0 0 0 1263 TGAACACACAATAGCTAAGACCC 0 0 1 0 1264 TCGCCTTACCCCCCACTA 0 1 0 0 1265 TCGATAAACCCCGATCAACCT 0 0 1 0 1266 TCCCCGTCACCTCCACCA 0 0 1 0 1267 TCCCCGGCACTCCACCA 0 0 1 0 1268 TCCCCCCGCTGCCACCA 1 0 0 0 1269 TCCCCCCCATCTCCACCA 0 0 1 0 1270 TACACACCGCCCGTCACCC 0 0 1 0 1271 GCTTAGCCTAGCCACACCCCCACG 0 0 1 0 1272 GCTCGCCAGAACACTACGA 0 0 1 0 1273 GCCGGGGGGCGGGCGCA 0 1 0 0 1274 GAACCGGGCGGGAACACCA 0 0 0 1 1275 CGCCGCAGTACTGATCATTC 0 0 1 0 1276 CCGCACCAATAGGATCCTCC 0 1 0 0 1277 CCCGGCCGACGCACCA 1 0 0 0 1278 CCACCCCATCATACTCTTTC 0 0 1 0 1279 CACCCCCCAGCTCCTCCTTT 1 0 0 0 1280 ATAAGTAACATGAAAACATTCTCCTC 0 0 1 0 1281 ACTGCTCGCCAGAACAC 0 0 1 0 1282 ACCCTGGTGTGGGATCTGCCCGATC 0 0 1 0 1283 AACCTCACCACCTCTTTCT 0 0 1 0 1284 AAAAGACACCCCCCACACCA 0 0 0 1 1285 ACCGGGCGGAAACACCA 9 14 60 20 1286 TCCCGGGTTCAAATCCCGGACGAGCCC 0 0 4 37 CCA 1287 GGCCGTGATCGTATA 2 0 0 0 1288 CCCCGTACTGGCCACCA 2 0 0 0 1289 TGGGATGCGAGAGGTCCCGGGT 0 0 0 1 1290 TCGAATCCTGTTCGTGACGCCA 0 0 0 1 1291 CTGAACTCCTCACACCC 0 1 0 0 1292 ATTCAAAAAAGAGTACCA 0 0 1 0 1293 ATTAATCCCCTGGCCCAACCCG 0 0 0 1 1294 AGCCCCAAACCCACTCCAC 0 0 1 0 1295 CGCGACCTCAGATCAGAC 1 5 8 1 1296 GGCCGGTGATGAGAACT 4 3 0 0 1297 TCAAGTGATGTCATCTTACTACTGAGA 0 0 3 1 1298 TTGGGTGCGAGAGGTCCCGGGT 0 0 0 3 1299 TCTCGGTGGGACCTCCA 0 2 0 0 1300 CCGCCCCCCGTTCCCCC 1 1 0 0 1301 CCCACTGCTAAATTTGACTGGCTT 0 0 1 1 1302 ACAGACCAAGAGCCTTC 0 0 2 0 1303 TGTAGTAGTCAATTAATGGATATTA 0 0 1 0 1304 TGGTTATCACGTTCGCCTCACACGCGA 0 0 0 1 1305 TGGGAATACCGGGTG 0 0 1 0 1306 TGGCGGCCAAGCGTTCATAGCGACGTC 0 0 0 1 1307 TCGTCATCCAGCTAAGGGCTCAGA 0 0 1 0 1308 TCGCCTGCCACGCGGGAGGCCCGGGT 0 0 1 0 1309 TCCCACTGCTTCACTTGA 0 0 0 1 1310 GTTTAGACGGGCTCACATCACCCCA 0 0 1 0 1311 GGCCGGTGATGAGAACTTCTCCC 1 0 0 0 1312 GCTAACTCATGCCCCCATGTC 0 0 1 0 1313 GACTGTGGTGGTTGAATATA 0 0 0 1 1314 CGCGACCTCAGATCAGACGTGGCGACC 0 0 1 0 1315 CGCCGCCGCCCCCCC 0 1 0 0 1316 CGCCCGACTACCACCACATCCA 1 0 0 0 1317 CCCCCCTCCACGCGCCC 0 1 0 0 1318 CCCCACCCCGCGCCCTC 0 1 0 0 1319 CAGAGTGTAGCTTAACACAAAGCACCC 0 0 1 0 AA 1320 CAATCTTGGCATGTTGGTCTGGTCACCC 0 0 1 0 A 1321 CAAAGCATCGCGAAGGCCC 0 0 1 0 1322 AACACCCTGATTGCTCCTGTCTGAT 0 0 1 0 1323 AAAAAGGGCCTAAAGAAGATGCA 0 0 1 0

TABLE 10 (PART A) List of short-RNA consensus with maximum 1 mismatch to the human genome. Table includes information on genomic locations and annotations. SEQ ID ID NO: Short-RNA sequence Annotations CU-6232 1324 TGGCTCAGTTCAGCAGGAACAGT Mature: hsa-miR-24: MIMAT0000080 CU-6180 1325 GTGGGGGAGAGGCTGTCGA Mature: hsa-miR-1275: MIMAT0005929 CU-6130 1326 CGGGGCAGCTCAGTACAGGATT Mature: hsa-miR-486-3p: MIMAT0004762 CU-6044 1327 AATTGCACGGTATCCATCTGTAT Mature: hsa-miR-363: MIMAT0000707 CU-6239 1328 TGTCAGTTTGTTAATTGACCCAA NEW CU-6006 1329 GGCAATACGAGCACCCTG NEW CU-6133 1330 CGGGGGAGCGCCGCGTA NEW CU-6004 1331 CCGGGGCGTCTCGTAC NEW CU-6056 1332 AGCGGCTGTGCACAAA NEW CU-6242 1333 TGTCAGTTTGTTTAATCCAA NEW CU-6241 1334 TGTCAGTTTGTTATTACCAA NEW CU-6237 1335 TGTCAGGCACCATCAATAA NEW CU-6225 1336 TGATCTTGACACTTAAAGCC NEW CU-6219 1337 TCGTAGGCACCATCAAT NEW CU-6215 1338 TCGATCCCGGGTTTCGGCACCA NEW CU-6211 1339 TCGACTCCCGGTATGGGAACCA NEW CU-6187 1340 TAGGGAGGTTATGATTAACTTTT NEW CU-6183 1341 TAAAGTGCTTAGTGCAGGTA NEW CU-6181 1342 GTTTATGTTGCTTACCTCC NEW CU-6176 1343 GTAGATAAAATATTGGCG NEW CU-6163 1344 GGCGGGGACGACGTCAG NEW CU-6162 1345 GGCGGCGTCGCGGCGGGTC NEW CU-6161 1346 GGAGGGGGTGAACAAAAAGAAAAA NEW CU-6159 1347 GCTAAACCTAGCCCCAAACCCACTCCACA NEW CU-6142 1348 CTGGATAGCGCACTTCGTT NEW CU-6129 1349 CGGGCGAGGGGCGGACGTTCG NEW CU-6123 1350 CGGACCTATACCGGA NEW CU-6096 1351 CCCCGGGTTCAATCCCCGGCACCTCCACCA NEW CU-6088 1352 CCCCCCACAACCGCGAA NEW CU-6087 1353 CCCAGCATCTCCTGTGTTTA NEW CU-6086 1354 CCCACGTTGGGACGCCA NEW CU-6072 1355 ATCGTATCCCACTTCTGACACCA NEW CU-6064 1356 ATCACGTCCGTGCCTCCA NEW CU-6063 1357 ATAGCAATGTCAGCAGTACCT NEW CU-6051 1358 ACCCTGCTCGCTGCGCCA tRNAprefix-annotate; refseqGeneIntron-annotate CU-6198 1359 TCCCACCCAGGGACGCCA tRNAprefix-annotate; refseqGeneIntron-annotate CU-6218 1360 TCGTAGGCACATCAATA refseqGeneIntron-annotate CU-6007 1361 CCCCCACAACCGCGTA refseqGeneIntron-annotate CU-6001 1362 ACCCCGTCCGTGCCTCCA tRNAprefix-annotate; refseqGeneIntron-annotate CU-6039 1363 AAAAAAGACACCCCCCACA refseqGeneIntron-annotate CU-6005 1364 TGTCAGTTTGTTAACCCAA refseqGeneIntron-annotate CU-6204 1365 TCCCTGTGGTCTAGTGGTTAGG refseqGeneIntron-annotate CU-6172 1366 GGGGGGGTAAAAAAA refseqGeneIntron-annotate CU-6171 1367 GGGGGGGGAAAAAAAA refseqGeneIntron-annotate CU-6128 1368 CGGGCCCGGGTCTTCCC refseqGeneIntron-annotate CU-6002 1369 CCGCCCCCCGTTCCCCCCA refseqGeneIntron-annotate CU-6050 1370 ACCCCCGGCTCCTCCACCA tRNAprefix-annotate; refseqGeneIntron-annotate CU-6244 1371 TTTGGTGGAAATTTTTTGA refseqGeneIntron-annotate CU-6240 1372 TGTCAGTTTGTTATACCAA refseqGeneIntron-annotate CU-6238 1373 TGTCAGTTTGTAATTATCCCAA refseqGeneIntron-annotate CU-6236 1374 TGTCAATTTTTAACCCAA refseqGeneIntron-annotate CU-6227 1375 TGCTAGGGTAAAAAAAAAA refseqGeneIntron-annotate CU-6226 1376 TGCAACTCCAAATAAAAGTACCA tRNAprefix-annotate; refseqGeneIntron-annotate CU-6224 1377 TGAGGTAACGGGGAATTA refseqGeneIntron-annotate CU-6209 1378 TCCTCGGCATCTCCACCA refseqGeneIntron-annotate CU-6197 1379 TCATATGAAGTCACCCTAGCCATC mitochondrion-annotate; refseqGeneIntron- annotate CU-6196 1380 TCAGTTTGTTTATTAACCCAA refseqGeneIntron-annotate CU-6195 1381 TCAGCGTGTCTTTGCCCT refseqGeneIntron-annotate CU-6194 1382 TCACTGGTGGTCTAGTGGT refseqGeneIntron-annotate; rnaGene-annotate CU-6193 1383 TCACAATGCTGCCACCA refseqGeneIntron-annotate CU-6189 1384 TAGTTGTTAATTAACCCAA refseqGeneIntron-annotate CU-6188 1385 TAGTCCTCATCGCCCTCC mitochondrion-annotate; refseqGeneIntron- annotate CU-6184 1386 TAAAGTGCTTATAGTGCGGGTAA refseqGeneIntron-annotate CU-6179 1387 GTCCCACCAGAGTCGCCA tRNAprefix-annotate; refseqGeneIntron-annotate CU-6170 1388 GGGGGAGGGGCCAAAAAAA refseqGeneIntron-annotate CU-6167 1389 GGGACGCCGCGGTGTCG refseqGeneIntron-annotate CU-6166 1390 GGGAATACCGGGTGCTTTAGGCTT refseqGeneIntron-annotate; rnaGene-annotate CU-6160 1391 GGAAGAAGGTGGTGGTATA refseqGeneIntron-annotate CU-6156 1392 GCGGTGAAATGCGTA computGene-annotate; Ecoli-annotate; refseqGeneIntron-annotate CU-6154 1393 GCGGGGAAGGTGGCAAA refseqGeneIntron-annotate CU-6152 1394 GCGACGACCTCGCGCCCACCTGGTCA refseqGeneIntron-annotate CU-6151 1395 GCCACCCGATACTGCTGT refseqGeneIntron-annotate CU-6150 1396 GATGTATGCTTTGTTTCTGTT refseqGeneIntron-annotate CU-6148 1397 GAGGGGGATTTAGAAAAAAA refseqGeneIntron-annotate CU-6147 1398 GAAGGAAAGTTCTATAGT refseqGeneIntron-annotate CU-6146 1399 GAAGCGGCTCTCTTATTT refseqGeneIntron-annotate CU-6145 1400 GAACGAGACTCTGGCATGCTGA refseqGeneIntron-annotate; rnaGene-annotate CU-6143 1401 CTGGTAGGCCCATCAAT refseqGeneIntron-annotate CU-6132 1402 CGGGGCCGATCGCGCGC computGene-annotate; refseqGeneIntron-annotate CU-6125 1403 CGGCCCCGGGTTCCTCCC computGene-annotate; refseqGeneIntron-annotate CU-6118 1404 CGAGCCCGGTTAGTA refseqGeneIntron-annotate; rnaGene-annotate CU-6117 1405 CGACTCTTAGCGGTGGA piRNA-annotate; refseqGeneIntron-annotate CU-6116 1406 CGAATCCCACTTCTGACACCA tRNAprefix-annotate; refseqGeneIntron-annotate CU-6113 1407 CGAAAGGGAATCGGGTC refseqGeneIntron-annotate CU-6112 1408 CCTTAGGTCGCTGGTAAA refseqGeneIntron-annotate CU-6108 1409 CCGTGCGAGAATACCA tRNAprefix-annotate; refseqGeneIntron-annotate CU-6107 1410 CCGGTCTCTCAAGCGGCC refseqGeneIntron-annotate CU-6099 1411 CCCGGCCCTCGCGCGTCC computGene-annotate; refseqGeneIntron-annotate CU-6094 1412 CCCCGGCATTTCCACCA computGene-annotate; refseqGeneIntron-annotate CU-6090 1413 CCCCCCCGGCTCCTCCACCA refseqGeneIntron-annotate CU-6089 1414 CCCCCCACAACCGCTA refseqGeneIntron-annotate CU-6085 1415 CCCAAGTATTGACTCACCC mitochondrion-annotate; refseqGeneIntron- annotate CU-6084 1416 CCAGTAAGCGCGAGTC refseqGeneIntron-annotate CU-6082 1417 CCAAAGAAAGCACGTAGAG refseqGeneIntron-annotate CU-6081 1418 CATGTTTAACGGCCGCGGT mitochondrion-annotate; refseqGeneIntron- annotate CU-6080 1419 CAGTTTGTAATTAACCCAA refseqGeneIntron-annotate CU-6079 1420 CAGGAACGGCGCACCA computGene-annotate; refseqGeneIntron-annotate CU-6078 1421 CAGAACCCTCTAAATCCCC mitochondrion-annotate; refseqGeneIntron-annotate CU-6076 1422 CACCCGGCTGTGTGCACATGTGT miRBASE-annotate; computGene-annotate; refseqGeneIntron-annotate; wgRNA-annotate CU-6075 1423 CAATTGGACCAATCTATC mitochondrion-annotate; refseqGeneIntron-annotate CU-6074 1424 ATTCCTGTACTGCGATA refseqGeneIntron-annotate CU-6070 1425 ATCCCTGCGGCGTCTCCA refseqGeneIntron-annotate CU-6067 1426 ATCCCACCGCTGCCATCA refseqGeneIntron-annotate CU-6062 1427 AGTCAATAGAAGCCGGCGTA mitochondrion-annotate; refseqGeneIntron-annotate CU-6061 1428 AGGTTCGTTTGTAAAAA refseqGeneIntron-annotate CU-6060 1429 AGGTCCTGGGTTTAAGTGT computGene-annotate; refseqGeneIntron-annotate CU-6058 1430 AGGGGGAAGTTCTATAGTC refseqGeneIntron-annotate CU-6057 1431 AGGCTGTGATGCTCTCNTGAGCCCT refseqGeneIntron-annotate CU-6055 1432 AGCCCCTCTCCGGCCCTTA refseqGeneIntron-annotate CU-6054 1433 ACTACCACCTACCTCCC mitochondrion-annotate; refseqGeneIntron-annotate CU-6052 1434 ACGCCCTTCCCCCCCTTCTTT miRBASE-annotate; refseqGeneIntron-annotate CU-6049 1435 ACCCCACTCCTGGTGCAC refseqGeneIntron-annotate CU-6048 1436 ACCACCTGATCCCTTCCC refseqGeneIntron-annotate CU-6047 1437 ACAGCTAAGCACCCACCA refseqGeneIntron-annotate CU-6045 1438 ACACATGTTTAACGGCC mitochondrion-annotate; refseqGeneIntron-annotate CU-6043 1439 AATTAGGGACCTGTATG refseqGeneIntron-annotate CU-6042 1440 AATGGCCCATTTGGGCAAACA computGene-annotate; refseqGeneIntron-annotate CU-6041 1441 AAAGCGGCTGTGCAAACA refseqGeneIntron-annotate CU-6030 1442 ATCCTGCCGACTACGCCA tRNAprefix-annotate CU-6210 1443 TCGAATCCCACTCCTGACACCA tRNAprefix-annotate CU-6069 1444 ATCCCATCCTCGTCGCCA tRNAprefix-annotate CU-6216 1445 TCGATTCCCCGACGGGGAGCCA tRNAprefix-annotate CU-6071 1446 ATCCGGGTGCCCCCTCCA tRNAprefix-annotate CU-6212 1447 TCGACTCCTGGCTGGCTCGCCA tRNAprefix-annotate; wgRNA-annotate CU-6202 1448 TCCCGGGCGGCGCACCA tRNAprefix-annotate CU-6066 1449 ATCCCACCAGAGTCGCCA tRNAprefix-annotate CU-6200 1450 TCCCCGGCATCTCCACCAA computGene-annotate CU-6192 1451 TCAAATCACGTCGGGGTCACCA tRNAprefix-annotate CU-6157 1452 GCGGTGGATCACTCGGCTCGTGCGT rnaGene-annotate CU-6214 1453 TCGATCCCCGTACGGGCCACCA tRNAprefix-annotate CU-6213 1454 TCGAGCCTCACCTGGAGCACCA tRNAprefix-annotate CU-6206 1455 TCCGGCTCGAAGGACCA tRNAprefix-annotate CU-6105 1456 CCGGGTGTTGTAGA mRNAall-annotate; exEID-annotate CU-6235 1457 TGTAGCGTGGCCGAGCGGT rnaGene-annotate CU-6234 1458 TGGGGCGACCTCGGAGCAG mitochondrion-annotate CU-6230 1459 TGGCGTCCTAAGCCAGGGATTGTGGGT rnaGene-annotate CU-6229 1460 TGGCAGGGGAGATACCATGATTT rnaGene-annotate CU-6222 1461 TCTGATCAGGGTGAGCATC mitochondrion-annotate CU-6220 1462 TCGTAGGCACCATCCAT computGene-annotate CU-6165 1463 GGGAAACGGGGCGCGGCTG rnaGene-annotate CU-6137 1464 CTACTCCTGCTCGCATCTGCTATA mitochondrion-annotate CU-6135 1465 CGGGTGGGTTTTTACCGG computGene-annotate CU-6120 1466 CGAGGAATTCCCAGTAAG rnaGene-annotate CU-6115 1467 CGAACGCACTTGCGGCCCC rnaGene-annotate CU-6093 1468 CCCCGCGCGGGTTCGAATC rnaGene-annotate CU-6059 1469 AGGGGTATGATTCCCGCTT rnaGene-annotate CU-6131 1470 CGGGGCCACGCGCGCGTC mRNA-annotate; rRNA-eliminate CU-6032 1471 TGGCGCTGCGGGATGAAC rRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-1153 1472 CCCCCCACTGCTAAATTTGACTGGCTT yRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-6182 1473 TAAAGGTTCGTTTGTAAAA computGene-annotate; refseqGeneExon-eliminate CU-6033 1474 CGGGGCCGAGGGAGCGA rRNA-eliminate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6174 1475 GGGTTAGGCCTCTTTT tRNA-eliminate; rnaGene-annotate CU-6141 1476 CTGCGGAAGGATCATTA rRNA-eliminate; rnaGene-annotate CU-6101 1477 CCCTACCCCCCCGG rRNA-eliminate; refseqGeneIntron-annotate CU-6034 1478 CCCGCCGGGTCCGCCC computGene-annotate; rRNA-eliminate; refseqGeneExon-eliminate; refseqGeneIntron- annotate; rnaGene-annotate CU-6035 1479 CCCCGCGCCCTCTCTCTCTC rRNA-eliminate; refseqGeneIntron-annotate CU-6028 1480 CAGGCCTCCCTGGAATC computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6029 1481 AGTCCCACCCGGGGTACCA computGene-annotate; refseqGeneExon-eliminate; tRNAprefix-annotate CU-6243 1482 TTGACACGCCCCAGTGCCCTGT refseqGeneExon-eliminate CU-6233 1483 TGGGAGCGGGCGGGCGGTC rRNA-eliminate; rnaGene-annotate CU-6231 1484 TGGCGTGGAGCCGGGCGT rRNA-eliminate; refseqGeneIntron-annotate CU-6228 1485 TGGAGGTCCGTAGCGGT rRNA-eliminate; mRNA-annotate; refseqGeneIntron-annotate; rnaGene-annotate CU-6223 1486 TGAAGAAGGTCTCGAACA computGene-annotate; refseqGeneExon-eliminate CU-6221 1487 TCTCGCCGGGGCTTCCA computGene-annotate; refseqGeneExon-eliminate; rnaGene-annotate CU-6217 1488 TCGTAGCACCATCAATAA computGene-annotate; refseqGeneExon-eliminate CU-6208 1489 TCCGGGTCCCCCCTCCA computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6207 1490 TCCGGGGCTGCACGCGCGCT rRNA-eliminate; rnaGene-annotate CU-6205 1491 TCCGGCCGTGTCGGT computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6203 1492 TCCCTGTCCTCCAGGAGT miRBASE-annotate; computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron- annotate; wgRNA-annotate CU-6201 1493 TCCCCTCCTCGTCGCCA refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6199 1494 TCCCAGGTAGTCTAGTGGT refseqGeneExon-eliminate; refseqGeneIntron- annotate; rnaGene-annotate CU-6191 1495 TATTCATTTATCCCCAGCCTAT miRBASE-annotate; snoRNA-eliminate; refseqGeneIntron-annotate; wgRNA-annotate; rnaGene-annotate CU-6190 1496 TAGTTGTTATAACCCAA refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6186 1497 TAGATCACCCCCTCCCC mitochondrion-annotate; refseqGeneExon- eliminate; refseqGeneIntron-annotate CU-6185 1498 TACCGGCACCTGGCGCC computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6178 1499 GTATAGGGGCGAAAGAC rRNA-eliminate; mRNA-annotate; refseqGeneIntron-annotate; rnaGene-annotate CU-6177 1500 GTAGCTGGTTCCCTCCGAA rRNA-eliminate; mRNA-annotate; refseqGeneIntron-annotate; rnaGene-annotate CU-6175 1501 GGTAAGAAGCCCGGCTC computGene-annotate; rRNA-eliminate; refseqGeneExon-eliminate; refseqGeneIntron- annotate; rnaGene-annotate CU-6173 1502 GGGGGGGTTTAAAAAAAAA refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6169 1503 GGGGCGCACTACCGGCC refseqGeneExon-eliminate CU-6168 1504 GGGAGAGGCTGTCGCTGCG computGene-annotate; refseqGeneExon-eliminate CU-6164 1505 GGCGGGTGAAGCGGCG computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6158 1506 GCGGTTCCGGCGGCGTC rRNA-eliminate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6155 1507 GCGGGGCGCCTAGGCCTGGTTTGT refseqGeneExon-eliminate CU-6153 1508 GCGGCGGTCGGCGGGCGGCGGG rRNA-eliminate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6149 1509 GAGGGGGGGGGTGGGGGGGGA refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6144 1510 CTGTCGGCCACCATCAT computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6140 1511 CTGCAACTCGACCCCA computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6139 1512 CTCCTCTCCCCGCCCGCCG refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6138 1513 CTCAAAGATTAAGCCATGCATGTCTA rRNA-eliminate; rnaGene-annotate CU-6136 1514 CTACGCCGCGACGAG computGene-annotate; rRNA-eliminate CU-6134 1515 CGGGTGACGGGGAATCAGGGTT rRNA-eliminate; rnaGene-annotate CU-6127 1516 CGGGCAGCTTCCGGGA computGene-annotate; rRNA-eliminate; refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6126 1517 CGGGAGGCCCGGGTCCTG refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6124 1518 CGGCCCCGCATCCTCCC computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6122 1519 CGCGGGTAAACGGCGGGAGTAACTAT mRNAall-annotate; rRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-6121 1520 CGCCCCCCGTTCCCCCCTCC rRNA-eliminate CU-6119 1521 CGAGCGGAAACACCA computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate; tRNAprefix-annotate CU-6114 1522 CGAACCCGGCACCGC computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6111 1523 CCTCGGGCCGATCGCAC rRNA-eliminate; rnaGene-annotate CU-6110 1524 CCTATATATCTTACCA computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate; tRNAprefix-annotate CU-6109 1525 CCGTGGCGGCGACGACC computGene-annotate; rRNA-eliminate; refseqGeneExon-eliminate CU-6106 1526 CCGGGTTCCGGCACCA computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6104 1527 CCGCGAGGGGGGCCCG computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6103 1528 CCGCCTCACGGGACCA computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6102 1529 CCGCCCGTCCCCGCCCCTTG rRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-6100 1530 CCCGGGGCCGCGGTTCCG computGene-annotate; rRNA-eliminate; refseqGeneIntron-annotate CU-6098 1531 CCCGAGCCGCCTGGAT computGene-annotate; rRNA-eliminate; refseqGeneExon-eliminate; refseqGeneIntron- annotate; rnaGene-annotate CU-6097 1532 CCCGACGGCCGAACT computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6095 1533 CCCCGGGGAGCCCGGCGGG computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6092 1534 CCCCCTCGCGGCCCTCCCC rRNA-eliminate; refseqGeneIntron-annotate CU-6091 1535 CCCCCCGTGGCGGCGAC rRNA-eliminate; refseqGeneIntron-annotate CU-6083 1536 CCACCCAGGGCACGCCA refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6077 1537 CACGGGTGACGGGGAA computGene-annotate; rnaGene-annotate; refseqGeneIntron-annotate; rRNA-eliminate; refseqGeneExon-eliminate; piRNA-annotate CU-6073 1538 ATGGGGAGGAAAAAAAAAAAAAA refseqGeneExon-eliminate; refseqGeneIntron- annotate CU-6068 1539 ATCCCACCGCTGCCCCCA computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6065 1540 ATCACGTCGGTCACCA computGene-annotate; refseqGeneExon-eliminate; refseqGeneIntron-annotate CU-6053 1541 ACGGGAAACCTCACCCGGCCCGG rRNA-eliminate; piRNA-annotate; rnaGene- annotate CU-6046 1542 ACAGAGGCTTACGACCCCTTATTT mitochondrion-annotate; tRNA-eliminate; refseqGeneIntron-annotate; rnaGene-annotate CU-6040 1543 AAAAAGGCATAATTAAACTT mitochondrion-annotate; refseqGeneExon- eliminate; refseqGeneIntron-annotatep

TABLE 10 (PART B) List of short-RNA consensus with maximum 1 mismatch to the human genome, including count information. Corrected Counts SEQ Naïve Memory Centroblasts Ramos ID NO: Short-RNA sequence (N) (M) (CB) (RA) 1544 TGGCTCAGTTCAGCAGGAACAGT 0 0 1 0 1545 GTGGGGGAGAGGCTGTCGA 0 0 0 1 1546 CGGGGCAGCTCAGTACAGGATT 0 0 1 0 1547 AATTGCACGGTATCCATCTGTAT 0 0 1 0 1548 TGTCAGTTTGTTAATTGACCCAA 0 0 1 1 1549 GGCAATACGAGCACCCTG 2 0 0 0 1550 CGGGGGAGCGCCGCGTA 2 0 0 0 1551 CCGGGGCGTCTCGTAC 2 0 0 0 1552 AGCGGCTGTGCACAAA 0 0 0 2 1553 TGTCAGTTTGTTTAATCCAA 0 0 0 1 1554 TGTCAGTTTGTTATTACCAA 0 0 0 1 1555 TGTCAGGCACCATCAATAA 0 0 0 1 1556 TGATCTTGACACTTAAAGCC 0 0 0 1 1557 TCGTAGGCACCATCAAT 0 0 0 1 1558 TCGATCCCGGGTTTCGGCACCA 0 0 1 0 1559 TCGACTCCCGGTATGGGAACCA 0 0 0 1 1560 TAGGGAGGTTATGATTAACTTTT 0 0 0 1 1561 TAAAGTGCTTAGTGCAGGTA 0 0 0 1 1562 GTTTATGTTGCTTACCTCC 0 0 1 0 1563 GTAGATAAAATATTGGCG 1 0 0 0 1564 GGCGGGGACGACGTCAG 0 0 0 1 1565 GGCGGCGTCGCGGCGGGTC 0 1 0 0 1566 GGAGGGGGTGAACAAAAAGAAAAA 0 0 0 1 1567 GCTAAACCTAGCCCCAAACCCACTCC 0 0 0 1 ACA 1568 CTGGATAGCGCACTTCGTT 0 0 0 1 1569 CGGGCGAGGGGCGGACGTTCG 0 0 1 0 1570 CGGACCTATACCGGA 1 0 0 0 1571 CCCCGGGTTCAATCCCCGGCACCTC 0 0 1 0 CACCA 1572 CCCCCCACAACCGCGAA 0 1 0 0 1573 CCCAGCATCTCCTGTGTTTA 0 1 0 0 1574 CCCACGTTGGGACGCCA 1 0 0 0 1575 ATCGTATCCCACTTCTGACACCA 0 0 0 1 1576 ATCACGTCCGTGCCTCCA 0 1 0 0 1577 ATAGCAATGTCAGCAGTACCT 0 0 1 0 1578 ACCCTGCTCGCTGCGCCA 9 17 4 7 1579 TCCCACCCAGGGACGCCA 8 2 1 0 1580 TCGTAGGCACATCAATA 0 0 0 4 1581 CCCCCACAACCGCGTA 0 4 0 0 1582 ACCCCGTCCGTGCCTCCA 2 1 1 0 1583 AAAAAAGACACCCCCCACA 0 0 0 3 1584 TGTCAGTTTGTTAACCCAA 0 0 0 2 1585 TCCCTGTGGTCTAGTGGTTAGG 0 0 1 1 1586 GGGGGGGTAAAAAAA 0 0 0 1 1587 GGGGGGGGAAAAAAAA 0 0 0 1 1588 CGGGCCCGGGTCTTCCC 1 1 0 0 1589 CCGCCCCCCGTTCCCCCCA 0 2 0 0 1590 ACCCCCGGCTCCTCCACCA 0 1 0 1 1591 TTTGGTGGAAATTTTTTGA 0 0 0 1 1592 TGTCAGTTTGTTATACCAA 0 0 0 1 1593 TGTCAGTTTGTAATTATCCCAA 0 0 0 1 1594 TGTCAATTTTTAACCCAA 0 0 0 1 1595 TGCTAGGGTAAAAAAAAAA 0 0 0 1 1596 TGCAACTCCAAATAAAAGTACCA 0 0 0 1 1597 TGAGGTAACGGGGAATTA 0 0 0 1 1598 TCCTCGGCATCTCCACCA 0 0 1 0 1599 TCATATGAAGTCACCCTAGCCATC 0 0 1 0 1600 TCAGTTTGTTTATTAACCCAA 0 0 0 1 1601 TCAGCGTGTCTTTGCCCT 1 0 0 0 1602 TCACTGGTGGTCTAGTGGT 0 1 0 0 1603 TCACAATGCTGCCACCA 1 0 0 0 1604 TAGTTGTTAATTAACCCAA 0 0 0 1 1605 TAGTCCTCATCGCCCTCC 0 1 0 0 1606 TAAAGTGCTTATAGTGCGGGTAA 0 0 0 1 1607 GTCCCACCAGAGTCGCCA 0 0 1 0 1608 GGGGGAGGGGCCAAAAAAA 0 0 0 1 1609 GGGACGCCGCGGTGTCG 1 0 0 0 1610 GGGAATACCGGGTGCTTTAGGCTT 0 1 0 0 1611 GGAAGAAGGTGGTGGTATA 0 0 0 1 1612 GCGGTGAAATGCGTA 1 0 0 0 1613 GCGGGGAAGGTGGCAAA 0 0 0 1 1614 GCGACGACCTCGCGCCCACCTGGTCA 0 1 0 0 1615 GCCACCCGATACTGCTGT 0 1 0 0 1616 GATGTATGCTTTGTTTCTGTT 0 0 1 0 1617 GAGGGGGATTTAGAAAAAAA 0 0 0 1 1618 GAAGGAAAGTTCTATAGT 0 0 0 1 1619 GAAGCGGCTCTCTTATTT 0 0 0 1 1620 GAACGAGACTCTGGCATGCTGA 0 0 1 0 1621 CTGGTAGGCCCATCAAT 0 0 0 1 1622 CGGGGCCGATCGCGCGC 0 1 0 0 1623 CGGCCCCGGGTTCCTCCC 1 0 0 0 1624 CGAGCCCGGTTAGTA 1 0 0 0 1625 CGACTCTTAGCGGTGGA 0 0 1 0 1626 CGAATCCCACTTCTGACACCA 0 0 0 1 1627 CGAAAGGGAATCGGGTC 1 0 0 0 1628 CCTTAGGTCGCTGGTAAA 0 0 1 0 1629 CCGTGCGAGAATACCA 0 1 0 0 1630 CCGGTCTCTCAAGCGGCC 1 0 0 0 1631 CCCGGCCCTCGCGCGTCC 0 1 0 0 1632 CCCCGGCATTTCCACCA 0 0 1 0 1633 CCCCCCCGGCTCCTCCACCA 0 0 0 1 1634 CCCCCCACAACCGCTA 0 1 0 0 1635 CCCAAGTATTGACTCACCC 0 1 0 0 1636 CCAGTAAGCGCGAGTC 1 0 0 0 1637 CCAAAGAAAGCACGTAGAG 0 0 0 1 1638 CATGTTTAACGGCCGCGGT 0 0 1 0 1639 CAGTTTGTAATTAACCCAA 0 0 0 1 1640 CAGGAACGGCGCACCA 0 0 1 0 1641 CAGAACCCTCTAAATCCCC 0 0 1 0 1642 CACCCGGCTGTGTGCACATGTGT 1 0 0 0 1643 CAATTGGACCAATCTATC 0 0 1 0 1644 ATTCCTGTACTGCGATA 0 0 0 1 1645 ATCCCTGCGGCGTCTCCA 0 0 0 1 1646 ATCCCACCGCTGCCATCA 0 1 0 0 1647 AGTCAATAGAAGCCGGCGTA 0 0 1 0 1648 AGGTTCGTTTGTAAAAA 0 0 0 1 1649 AGGTCCTGGGTTTAAGTGT 0 0 0 1 1650 AGGGGGAAGTTCTATAGTC 0 0 0 1 1651 AGGCTGTGATGCTCTCNTGAGCCCT 0 0 1 0 1652 AGCCCCTCTCCGGCCCTTA 0 1 0 0 1653 ACTACCACCTACCTCCC 1 0 0 0 1654 ACGCCCTTCCCCCCCTTCTTT 0 0 0 1 1655 ACCCCACTCCTGGTGCAC 1 0 0 0 1656 ACCACCTGATCCCTTCCC 1 0 0 0 1657 ACAGCTAAGCACCCACCA 0 0 1 0 1658 ACACATGTTTAACGGCC 1 0 0 0 1659 AATTAGGGACCTGTATG 0 0 1 0 1660 AATGGCCCATTTGGGCAAACA 0 0 0 1 1661 AAAGCGGCTGTGCAAACA 0 0 0 1 1662 ATCCTGCCGACTACGCCA 13 15 13 6 1663 TCGAATCCCACTCCTGACACCA 1 2 7 7 1664 ATCCCATCCTCGTCGCCA 0 0 10 3 1665 TCGATTCCCCGACGGGGAGCCA 1 1 1 9 1666 ATCCGGGTGCCCCCTCCA 2 4 0 1 1667 TCGACTCCTGGCTGGCTCGCCA 0 2 2 1 1668 TCCCGGGCGGCGCACCA 2 2 1 0 1669 ATCCCACCAGAGTCGCCA 0 0 2 3 1670 TCCCCGGCATCTCCACCAA 0 1 2 0 1671 TCAAATCACGTCGGGGTCACCA 0 1 2 0 1672 GCGGTGGATCACTCGGCTCGTGCGT 0 0 0 3 1673 TCGATCCCCGTACGGGCCACCA 0 0 1 1 1674 TCGAGCCTCACCTGGAGCACCA 0 0 2 0 1675 TCCGGCTCGAAGGACCA 0 0 2 0 1676 CCGGGTGTTGTAGA 2 0 0 0 1677 TGTAGCGTGGCCGAGCGGT 0 1 0 0 1678 TGGGGCGACCTCGGAGCAG 0 0 1 0 1679 TGGCGTCCTAAGCCAGGGATTGTGG 0 0 0 1 GT 1680 TGGCAGGGGAGATACCATGATTT 0 0 1 0 1681 TCTGATCAGGGTGAGCATC 0 1 0 0 1682 TCGTAGGCACCATCCAT 0 0 0 1 1683 GGGAAACGGGGCGCGGCTG 0 1 0 0 1684 CTACTCCTGCTCGCATCTGCTATA 0 0 1 0 1685 CGGGTGGGTTTTTACCGG 1 0 0 0 1686 CGAGGAATTCCCAGTAAG 0 0 1 0 1687 CGAACGCACTTGCGGCCCC 1 0 0 0 1688 CCCCGCGCGGGTTCGAATC 1 0 0 0 1689 AGGGGTATGATTCCCGCTT 0 0 0 1 1690 CGGGGCCACGCGCGCGTC 3 6 0 0 1691 TGGCGCTGCGGGATGAAC 0 3 1 0 1692 CCCCCCACTGCTAAATTTGACTGGCTT 0 0 2 2 1693 TAAAGGTTCGTTTGTAAAA 0 0 0 3 1694 CGGGGCCGAGGGAGCGA 1 2 0 0 1695 GGGTTAGGCCTCTTTT 0 1 1 0 1696 CTGCGGAAGGATCATTA 1 0 1 0 1697 CCCTACCCCCCCGG 0 2 0 0 1698 CCCGCCGGGTCCGCCC 2 0 0 0 1699 CCCCGCGCCCTTCTCTCTC 0 2 0 0 1700 CAGGCCTCCCTGGAATC 2 0 0 0 1701 AGTCCCACCCGGGGTACCA 0 0 0 2 1702 TTGACACGCCCCAGTGCCCTGT 1 0 0 0 1703 TGGGAGCGGGCGGGCGGTC 0 1 0 0 1704 TGGCGTGGAGCCGGGCGT 0 1 0 0 1705 TGGAGGTCCGTAGCGGT 1 0 0 0 1706 TGAAGAAGGTCTCGAACA 0 0 0 1 1707 TCTCGCCGGGGCTTCCA 0 1 0 0 1708 TCGTAGCACCATCAATAA 0 0 0 1 1709 TCCGGGTCCCCCCTCCA 0 1 0 0 1710 TCCGGGGCTGCACGCGCGCT 0 1 0 0 1711 TCCGGCCGTGTCGGT 1 0 0 0 1712 TCCCTGTCCTCCAGGAGT 0 0 0 1 1713 TCCCCTCCTCGTCGCCA 1 0 0 0 1714 TCCCAGGTAGTCTAGTGGT 1 0 0 0 1715 TATTCATTTATCCCCAGCCTAT 0 1 0 0 1716 TAGTTGTTATAACCCAA 0 0 0 1 1717 TAGATCACCCCCTCCCC 0 1 0 0 1718 TACCGGCACCTGGCGCC 1 0 0 0 1719 GTATAGGGGCGAAAGAC 0 0 1 0 1720 GTAGCTGGTTCCCTCCGAA 0 0 0 1 1721 GGTAAGAAGCCCGGCTC 0 0 1 0 1722 GGGGGGGTTTAAAAAAAAA 0 0 0 1 1723 GGGGCGCACTACCGGCC 1 0 0 0 1724 GGGAGAGGCTGTCGCTGCG 0 0 0 1 1725 GGCGGGTGAAGCGGCG 0 1 0 0 1726 GCGGTTCCGGCGGCGTC 0 1 0 0 1727 GCGGGGCGCCTAGGCCTGGTTTGT 1 0 0 0 1728 GCGGCGGTCGGCGGGCGGCGGG 1 0 0 0 1729 GAGGGGGGGGGTGGGGGGGGA 0 0 0 1 1730 CTGTCGGCCACCATCAT 0 0 0 1 1731 CTGCAACTCGACCCCA 0 1 0 0 1732 CTCCTCTCCCCGCCCGCCG 0 0 1 0 1733 CTCAAAGATTAAGCCATGCATGTCTA 0 0 1 0 1734 CTACGCCGCGACGAG 1 0 0 0 1735 CGGGTGACGGGGAATCAGGGTT 1 0 0 0 1736 CGGGCAGCTTCCGGGA 0 0 0 1 1737 CGGGAGGCCCGGGTCCTG 1 0 0 0 1738 CGGCCCCGCATCCTCCC 1 0 0 0 1739 CGCGGGTAAACGGCGGGAGTAACTAT 0 0 1 0 1740 CGCCCCCCGTTCCCCCCTCC 0 1 0 0 1741 CGAGCGGAAACACCA 1 0 0 0 1742 CGAACCCGGCACCGC 1 0 0 0 1743 CCTCGGGCCGATCGCAC 0 0 1 0 1744 CCTATATATCTTACCA 0 1 0 0 1745 CCGTGGCGGCGACGACC 0 1 0 0 1746 CCGGGTTCCGGCACCA 1 0 0 0 1747 CCGCGAGGGGGGCCCG 1 0 0 0 1748 CCGCCTCACGGGACCA 1 0 0 0 1749 CCGCCCGTCCCCGCCCCTTG 0 1 0 0 1750 CCCGGGGCCGCGGTTCCG 1 0 0 0 1751 CCCGAGCCGCCTGGAT 0 1 0 0 1752 CCCGACGGCCGAACT 0 1 0 0 1753 CCCCGGGGAGCCCGGCGGG 1 0 0 0 1754 CCCCCTCGCGGCCCTCCCC 0 1 0 0 1755 CCCCCCGTGGCGGCGAC 0 1 0 0 1756 CCACCCAGGGCACGCCA 1 0 0 0 1757 CACGGGTGACGGGGAA 1 0 0 0 1758 ATGGGGAGGAAAAAAAAAAAAAA 0 0 0 1 1759 ATCCCACCGCTGCCCCCA 0 0 0 1 1760 ATCACGTCGGTCACCA 0 0 0 1 1761 ACGGGAAACCTCACCCGGCCCGG 0 0 1 0 1762 ACAGAGGCTTACGACCCCTTATTT 0 0 1 0 1763 AAAAAGGCATAATTAAACTT 0 0 1 0

Abundance and evolutionary conservation. Previously reported miRNAs appeared to be generally more abundant than newly discovered miRNAs. Approximately 50% of previously reported miRNAs appeared in the libraries with more than 10 occurrences compared to 29% of the newly discovered miRNAs (FIG. 20A). Moreover, 48% of known miRNAs were expressed at all stages of mature B-cell development, while newly identified miRNAs showed a more distinct stage-specificity (FIG. 20B), consistent with the notion that presently known miRNAs are mostly representative of ubiquitously expressed miRNAs.

In order to investigate the presence of orthologous miRNA in other mammalian species, we relied on UCSC-provided Blastz pairwise alignments between human and target species and investigated conservation using two complementary methods, detailed in Supplemental Experimental Procedures. The analysis was performed on the complete set of miRNAs deposited in the miRBase database and on the miRNAs (known and new) represented in the B-cell libraries. Alignments of the human mature miRNA to its target species were required to have either perfect conservation of the entire mature miRNA sequence or conservation of seeds composed of seven bases starting from the second position of the human mature sequence followed by conservation of 3 bases starting from the 12th, 13th or 14th position as suggested by (Grimson et al., 2007) (FIG. 20C and Appendix Table 11).

The majority of miRBase-miRNAs showed conservation across mammalian genomes, from primates to rodents. Conservation frequency mimicked known phylogenetic distances to human, with the highest conservation in chimp and lowest in rat. The conservation frequencies of known and newly identified miRNAs in B cells were similar in chimp (Pan troglodytes) and monkey (Macacus rhesus), especially when conservation requirements were restricted to the seed region of miRNAs. However, conservation frequencies in dog, mouse and rat were significantly divergent, with known miRNAs more likely to exhibit conservation than new candidate miRNAs (FIG. 20C and Appendix Table 11). In summary, previously unreported miRNAs expressed at specific stages of B-cell differentiation were generally less abundant and showed a lower degree of conservation across species, as shown for other tissue-specific miRNAs.

Validation of previously unreported miRNAs. All 75 newly identified miRNAs were investigated by RT-PCR analysis in order to independently validate their existence in vivo in B-cell lines and cells isolated from tonsils. Positive results were obtained in 66 of the cases (see FIG. 21A for representative results and Table 12). Eighteen previously unreported miRNAs were also tested by RNA blot analysis and 11 were detectable (FIG. 21B and Table 12), either using total cellular RNA or upon enrichment for the short-RNA fraction. Overall, 88% of the newly cloned and computationally validated miRNAs were detectable by RNA blot and/or RT-PCR. The validation process also led to the identification of numerous miRNA which are differentially regulated either in normal versus transformed cells (see examples CU-1440, CU-1241, CU-1276 and CU-1137 in FIG. 21) as well as during the GC reaction (FIG. 22).

TABLE 12 Summary of results obtained from the Northern Blot and/or RT-PCR analyses performed on newly identified mature miRNAs cloned multiple times in the B-cell libraries. Seq ID ID No. Mature miRNA sequence Northern Blot RT-PCR CU-1369 1764 TCCCCGGCATCTCCACCA negative positive CU-1254 1765 TCCCCGGCACCTCCACCA positive positive CU-1298 1766 ATCCCGGACGAGCCCCCA not tested positive CU-1303 1767 ATCCCACTTCTGACACCA positive positive CU-1173 1768 ATCCCACTCCTGACACCA positive positive CU-1242 1769 TCCCCGTACGGGCCACCA not tested positive CU-1550 1770 CGGAAGCGTGCTGGGCCC not tested positive CU-1186 1771 TCCCCGACACCTCCACCA not tested positive CU-1368 1772 GACGAGGTGGCCGAGTGG positive positive CU-1243 1773 GTCCCTTCGTGGTCGCCA not tested positive CU-1470 1774 CTCCTGGCTGGCTCGCCA not tested positive CU-1300 1775 TCCTCACACGGGGCACCA not tested positive CU-1264 1776 GAGGGGGACCAAAAAAAA not tested negative CU-1212 1777 TCCCCGGCACTTCCACCA not tested positive CU-1345 1778 AGAACACTACGAGCCACA not tested positive CU-1352 1779 ACCCCACTTCTGGTACCA negative positive CU-1363 1780 CGTTCGCGCTTTCCCCTG not tested negative CU-1220 1781 TTCCCCGACGGGGAGCCA not tested positive CU-1197 1782 ATGTGGTGGCTTACTTTT not tested positive CU-1241 1783 AGTCCCATCTGGGTCGCCA positive positive CU-1148 1784 TGGTGTGGTCTGTTGTTTT not tested positive CU-1288 1785 CGTCCATGATGTTCCGCAA not tested positive CU-1528 1786 TAGGGGTATGATTCTCGCT not tested negative CU-1175 1787 GGCGTGATTCATACCTTTT not tested positive CU-1570 1788 ATCCCCAGCATCTCCACCA not tested positive CU-1269 1789 TACCGAGCCTGGTGATAGC not tested positive CU-1339 1790 ATCCCCAGCACCTCCACCA not tested positive CU-1132 1791 GCCGGGTACTTTCGTATTTT not tested negative CU-1370 1792 CTGATTGCTCCTGTCTGATT not tested positive CU-1545 1793 CCACGAGGAAGAGAGGTAGC not tested negative CU-1307 1794 ACCCCACTATGCTTAGCCCT not tested positive CU-1294 1795 AAAGGACCTGGCGGTGCTTC not tested positive CU-1371 1796 TCTAGAGGAGCCTGTTCTGTA not tested positive CU-1244 1797 GTCAGGATGGCCGAGCGGTCT not tested positive CU-1276 1798 TCGATTCCCGGCCAATGCACCA positive positive CU-1142 1799 TCGATTCCCGGCCCATGCACCA positive positive CU-1379 1800 TCGGGTGCGAGAGGTCCCGGGT negative positive CU-1381 1801 TCGATTCCCGGTCAGGGAACCA not tested positive CU-1403 1802 GCATTGGTGGTTCAGTGGTAGA positive positive CU-1457 1803 TTCTCACTACTGCACTTGACTA not tested positive CU-1557 1804 GGAGAGAACGCGGTCTGAGTGGT not tested positive CU-1542 1805 GGCTGGTCCGATGGTAGTGGGTT not tested positive CU-1221 1806 TGTGCTCCGGAGTTACCTCGTTT not tested negative CU-1380 1807 ATAGGTTTGGTCCTAGCCTTTCT not tested positive CU-1277 1808 GAGCCATGATGATACCACTGAGC not tested positive CU-1281 1809 GCAGCGCCAGCCTCCCGCCCTAC not tested positive CU-1524 1810 CCCCCACAACCGCGCTTGACTA not tested positive GC CU-1477 1811 CTCCCACTGCTTCACTTGACTAGC not tested positive CU-1575 1812 CCCCCCACTGCTAAATTTGACTG not tested positive GA CU-1137 1813 GCTAAGGAAGTCCTGTGCTCAG positive positive TTTT CU-1538 1814 GGCTGGTCCGAGTGCAGTGGTG not tested positive TTTA CU-1153 1815 CCCCCCACTGCTAAATTTGACTG positive positive GCTT CU-1513 1816 GCGGGTGATGCGAACTGGAGTC positive positive TGAGC CU-1293 1817 AGCAGTGATGTCCTGAAAATTCT not tested negative GAAG CU-1388 1818 TCCCTGGTGGTCTAGTGGTTAG negative positive GATTCG CU-1180 1819 AACCGAGCGTCCAAGCTCTTTC not tested positive CATTTT CU-1382 1820 TCCTCGTTAGTATAGTGGTGAGT negative positive ATCCC CU-1251 1821 CCCACCCAGGGACGCCA negative positive CU-1191 1822 GCCCGCATCCTCCACCA negative positive CU-1453 1823 CCCTGCTCGCTGCGCCA not tested positive CU-1222 1824 TCACGTCGGGGTCACCA not tested Positive CU-1178 1825 AGGGTGTGCGTGTTTTT not tested Positive CU-1488 1826 TCCTGCCGCGGTCGCCA not tested Positive CU-1164 1827 GAGAGCGCTCGGTTTTT not tested Negative CU-1486 1828 CTGCTGTGATGACATTC not tested Positive CU-1130 1829 CCCGGGTTTCGGCACCA not tested Positive CU-1155 1830 TCCCCGCACCTCCACCA not tested Positive CU-1278 1831 TAACGGCCGCGGTACCC not tested Positive CU-1246 1832 AGGGGGGTAAAAAAAAA not tested Positive CU-1440 1833 TGGTTATCACGTTCGCC not tested Positive CU-1213 1834 TCACCCCATAAACACCA not tested Positive CU-1146 1835 AGAAAGGCCGAATTTTA not tested Positive CU-1323 1836 TGTATTGTGAGACATTC not tested Positive CU-1324 1837 TCTCGGTGGAACCTCCA not tested Positive CU-1396 1838 TAAGTGTTTGTGGGTTA not tested negative

In order to gain preliminary evidence of the functionality of the previously unreported miRNAs, a small subset of these miRNAs which were fully validated at the expression level was tested for incorporation in the functional miRNA-mRNA complex by co-immunoprecipitation with Ago2 proteins (Mourelatos et al., 2002). The results showed that the RNA fraction associated with the Ago complex was indeed enriched for each of the four tested previously unreported miRNAs (FIG. 25), confirming that the identified sequences enter the expected miRNA functional pathway.

Indirect clues on the functionality of miRNAs may also be obtained analyzing the effect of stage-specific miRNAs on the corresponding transcriptome since most miRNAs have been showed to affect the expression of their targets albeit to a modest degree (Filipowicz et al., 2008). Toward this end, the targets of 15 previously unreported GC-over-expressed miRNAs were predicted by two algorithms (miRanda and RNA22) (John et al., 2004; Miranda et al., 2006) and were tested for enrichment in genes down-regulated in GC versus naïve B cells. Eleven out of 15 miRNA showed an increase (and only two a decrease) in their candidate target enrichment p-value for GC down-regulated genes compared to control populations (FIG. 26 and Table 13). These results suggest that indeed miRNAs associated with GC B cells specifically affect the GC transcriptome.

TABLE 13 Enrichment for predicted miRNA targets in genes downregulated in CB and in memory compared to naïve B cells. Targets enrichment in Targets enrichment in CB over-expressed genes downregulated in genes downregulated in miRNA CB vs N (p-value) M vs N (p-value) CU-1380 0.0001 0.4079 CU-1388 0.0002 0.2699 CU-1477 0.0002 0.0514 CU-1538 0.0014 0.1609 CU-1142 0.0016 0.0012 CU-1382 0.0016 0.0242 CU-1403 0.0026 0.0032 CU-1470 0.0029 0.5392 CU-1276 0.0193 0.0187 CU-1371 0.0413 0.2252 CU-1153 0.091 1 CU-1575 0.1598 1 CU-1370 0.1708 0.4595 CU-1303 1 1 CU-1513 1 1

In summary, previously unreported miRNAs identified by cloning and computational analysis were validated at the expression level by multiple detection methods. For a small subset tested, their incorporation in the Ago complex and their activity on the GC transcriptome suggests biological functionality.

Transcriptional and post-transcriptional regulation. Most newly identified miRNAs tested by RNA blot showed a long abundant transcript (>150 nt) likely corresponding to the primary miRNA transcript and a second transcript (−60-80 nt) consistent with the precursor miRNA. As shown in FIG. 21C (top panel), the precursor miRNA and the correspondent mature miRNA may be produced in some cell type but not in others, suggesting transcriptional regulation. Conversely, the relative abundance of precursor and mature miRNA was different is some cell types (FIG. 21C, bottom panel) suggesting the existence of post-transcriptional regulation most likely targeting the Dicer-dependent pre-miRNA processing (Lee et al., 2007; Michael et al., 2003; Thomson et al., 2006).

Taken together, these observations suggest that the expression of mature miRNAs may be affected by both transcriptional and post-transcriptional regulatory mechanisms.

Distinct miRNA signatures in normal B-cell subpopulations. In order to further investigate whether specific miRNA regulation occurred in normal B-cell development or in transformed cells, miRNA representation was examined in libraries constructed from naïve, GC and memory B cells, as well as from the Ramos BL cell line. Differential expression of numerous known and newly identified miRNAs was evident during B-cell differentiation and GC transit as shown by hierarchical clustering using miRNA frequencies (defined as the fraction of the total pool of cloned miRNAs represented by a given miRNA in a library) obtained from the cloning data (FIG. 22A). Naïve and memory B cells appeared similar, sharing a large fraction of the most abundant miRNAs. Conversely, centroblasts showed a more distinct miRNA profile with a sizeable fraction of abundant miRNAs being specifically expressed in the CB library, suggesting specific functions. Some miRNAs were expressed in the GC-derived Ramos cells, but not in normal GC B cells, or vice versa in the normal but not in the tumor cells, suggesting that malignant transformation affects miRNA expression.

To independently validate results of the cloning experiment, miRNA expression profiling was performed of centroblasts, naïve and memory B cells (six donors/each) using a commercial microarray representative of 723 known human miRNAs (miRBase v.10.1). The Spearman correlation between cloning and microarray data is 0.7 corresponding to a p-value<3.9e-28 (FIG. 27). Each B-cell population showed a distinct miRNA expression profile. Consistent with the cloning data (FIG. 22A), GC B cells appeared to be quite distinct from naïve and memory B cells, which instead shared expression of a large fraction of miRNAs (FIG. 22B). The expression of several miRNAs was tested by qRT-PCR analysis, which confirmed that the microarray data were quantitatively accurate. Overall, these results show that the GC reaction is characterized by the specific expression of multiple miRNAs.

Discussion

The combination of cloning procedures and computational tools used in this study led to the identification of a large fraction of miRNA expressed during B-cell differentiation. These included 75 previously unreported miRNAs, as well as a potentially distinct class of short-RNAs not fulfilling current criteria for miRNAs. These findings have general implications for the understanding of the total miRNA content of the human genome as well as for future studies on the role of miRNAs in B-cell differentiation, function and lymphomagenesis.

The discovery of 75 previously unreported miRNAs expressed in normal and/or malignant B cells is in contrast with a previous study that reported the discovery of only 12 new human miRNA (Landgraf et al., 2007) from an analysis of a large panel of different organ systems and cell types and suggested that most miRNAs have already been identified and are ubiquitously expressed (Landgraf et al., 2007). These discordant results and conclusions may be due i) to the higher number of clones per library sequenced in this study (3500 versus 1300 on average in (Landgraf et al., 2007)), which allowed the detection of low-abundance miRNA species and ii) to the criteria applied in the miRNA identification which do not include conservation and allow consideration of repetitive elements (see Supplemental Experimental Procedures in Example 3). Moreover, the relatively lower degree of evolutionary conservation of previously unreported miRNAs may have prevented the cross-species identification of miRNAs using murine libraries (Chen et al., 2004; Neilson et al., 2007). Consistent with these observations, a recent report on short-RNAs in mouse embryonic stem cells discovered Dicer-dependent miRNAs characterized by both low abundance and low degree of conservation (Calabrese et al., 2007). Since 88% of the previously unreported miRNAs have been independently detected by RT-PCR and/or RNA blot analyses, our cloning and computational approach is largely validated.

We note that a fraction of the validated miRNAs display similarity to the 3′-end of post-transcriptionally modified tRNAs, raising the possibility that they may derive from loci with t-RNA homology or by direct processing of t-RNAs. We also identified a large set of candidate miRNAs (101 unreported, to our knowledge, and 27 known) that have been cloned as single occurrences in the B-cell libraries (Table 7). This group of candidate miRNAs has not yet been fully investigated, but nevertheless they may include bona fide miRNAs because 3 out of 3 tested were detectable by RNA blot or RT-PCR analyses. Thus, our data in B cells suggest that a large number of low-abundance, recently evolved, tissue-specific miRNAs remain to be discovered.

Two categories of short-RNAs were identified that could not be annotated as bona fide miRNAs. The first category is represented by short-RNAs which display all features required by the computational pipeline to be defined as candidate miRNAs, but nevertheless have an atypical length (<17 nt or >28 nt; 75 candidate miRNAs). Sequences belonging to this first category may include bona fide miRNAs since 2 out of 2 tested were detectable by RT-PCR. The second category is represented by those short-RNAs for which classic pre-miRNA structures could not be identified in the genome and no similarity to other non-coding RNA was found in the available databases. These short-RNAs may either be miRNA for which RNA secondary structure prediction algorithms failed to predict the correct hairpin structure or may represent new miRNA species of presently unknown mechanism of generation or other not yet described types of short-RNAs.

Finally, this analysis led to the discovery of short-RNAs that could not be accurately mapped to the genome. Considering that a fraction of these RNAs were cloned multiple times and showed a stage-specific behavior, we suggest that such short-RNAs do actually exist and that the lack of a match to the human genome may be due to polymorphisms, editing and other post-transcriptional modifications or to an incomplete or inaccurate sequencing of the corresponding genomic regions.

The specificity in mature miRNA expression appears to be regulated at the transcriptional as well as at the post-transcriptional, i.e. pre-miRNA processing, level. Indeed, the accumulation of pre-miRNA in absence of a mature miRNA can occur in a cell type-restricted manner, suggesting the presence of a mechanism of regulation at the pre-miRNA processing step. Both regulatory mechanisms may act during normal differentiation and may also be dysregulated during transformation as a consequence of genetic or epigenetic alterations (Lee et al., 2007; Michael et al., 2003; Thomson et al., 2006). Indeed, miRNAs CU-1137 and CU-1368 represent examples of transcriptional activation and post-transcriptional silencing associated with malignant transformation, respectively.

The stage-specific expression of various miRNAs strongly suggests highly specialized regulatory functions in B-cell biology. The role of miRNAs that show cell type-specific functions in lymphocytes has just begun to be elucidated (Dorsett et al., 2008; Li et al., 2007; Rodriguez et al., 2007; Teng et al., 2008; That et al., 2007; Xiao et al., 2007). The miRNAs specifically associated with GC or non-GC B cells by either cloning or miRNA expression profiling have not been previously reported in B-cell differentiation with the exception of miR-150 (Xiao et al., 2007). For example the miR-199 and miR-125 families as well as miR-138 show a distinct expression in GC B cells although none of these miRNAs has been investigated for a role in this cell compartment. The extent of post-transcriptional regulation added by miRNAs will be fully uncovered only in the context of the complex network of cellular interactions (Basso et al., 2005), which will require the integration of large scale gene and miRNA expression data.

miRNA expression can be affected by malignant transformation. For instance, the miR-17-92 cluster, previously reported as a potential oncogene (He et al., 2005), was found over-expressed in Ramos cell line compared to GC B cells. Moreover, several miRNAs (i.e. CU-1137, CU-1148) show expression in Ramos cells and in several additional BL cell lines, but not in their normal GC counterpart. Vice versa, as observed for the miR-199 family, the expression of some miRNAs is lost in the tumor cells. The data herein represents a useful basis to investigate whether lymphoma-associated chromosomal lesions affect genomic regions associated with miRNA expression.

Finally, the differences in miRNA expression profile between GC and non-GC B cells resembled those observed by expression profiling of coding genes (Klein et al., 2003), consistent with the previous observation that miRNA profiling may be equally or more informative in discriminating tumor phenotypes (Calin et al., 2005; Lu et al., 2005). This suggests that miRNA expression profiling, especially if including new B-cell specific miRNAs, may be useful in the differential diagnosis of lymphoid malignancies.

The expanded B-cell miRNome described here represents a resource which can be used to identify miRNAs expressed during the GC transit as well as specific differences in miRNA expression in normal versus lymphoma cells, and which can guide studies to unveil the function of miRNAs in normal B cell development and lymphomagenesis.

EXPERIMENTAL PROCEDURES

Generation of short-RNA libraries. Purification of naïve, memory and GC B cells was performed as previously reported (Klein et al., 2003) using magnetic cell sorting of mononucleated cells obtained from human tonsils. Total RNA was purified using the Trizol Reagent (Invitrogen) following the manufacturer's indications. The short-RNA libraries were generated using an established protocol described in detail in (Lau et al., 2001). Briefly, total RNA was separated on 15% polyacrylamide gel and the fragment corresponding to 15-30 nucleotides length was excised. The purified small RNAs were linked to adaptor oligonucleotides and gel purified. Upon adaptor ligation, RNA was reverse transcribed and cDNA was PCR amplified and cloned into pCR2.1-TOPO vector (Invitrogen). Sequencing was performed on colony PCR amplicons.

Computational identification of precursor and mature miRNAs. The bioinformatics miRNA analysis pipeline (FIG. 18) includes: (a) identification of short-RNAs from each library, (b) identification of exact and partial matches of the short-RNA sequences to the human genome, (c) testing each short-RNA genomic region for compatibility with hairpin secondary structures, (d) clustering genomic regions to predict mature miRNAs, (e) annotating and filtering short-RNAs and miRNAs candidates, (f) estimation of predicted miRNA frequencies in the libraries and (g) clustering short-RNAs that do not support miRNA candidates. The details are reported in the Supplemental Experimental Procedures in Example.

Orthology analysis. The identification of putative orthologous sequences of known and predicted precursor and mature human miRNAs in chimp (panTro2), monkey (rheMac2), dog (canFam2), mouse (mm8) and rat (rn4) was performed using UCSC-provided Blastz (Schwartz et al., 2003) pairwise alignments between human and target species. The details are reported below.

miRNA expression profiling. The miRNA expression profiles were generated using the Human miRNA Microarray kit (Agilent Technologies) that allows detection of 723 known human (miRBase v.10.1) and 76 human viral miRNAs, following the manufacturer's indications. Analysis of raw data was performed using the Feature Extraction Software 9.5.3.1 (Agilent Technologies). The dendrograms (FIG. 22) were generated using a hierarchical clustering algorithm based on the average-linkage method (Eisen et al., 1998; Hartigan, 1975) and Spearman's correlation as provided by the geWorkbench platform (http://www.geworkbench.org).

RT-PCR analysis. Small RNA fractions were purified using the Trizol Reagent (Invitrogen) and the PureLink miRNA Isolation Kit (Invitrogen), following the manufacturer's indications. RT-PCR was performed as previously described (Sharbati-Tehrani et al., 2008). Briefly, miRNA sequences were reverse-transcribed from 50 ng short-RNA using Superscript III First Strand Synthesis Kit (Invitrogen), in the presence of 0.2 μM RTFS primer (miRNA-specific primers, see Table 14). 1/10^(th) of the cDNA volume was then used as template for 34 cycles of PCR amplification in the presence of 4 nM SS primer (miRNA-specific primers, see Table 14) and 0.4 μM each of MPF and MPR universal primers (Table 14). PCR products were separated on 12% non-denaturing polyacrylamide gel, detected by SybrGold (1:10,000 dilution; Invitrogen) and visualized under UV light.

TABLE 14 List of probes and primers used for Northern Blot and RT-PCR analyses, respectively. Seq mature miRNA ID sequence Seq ID Probe sequence Hybridization ID No. (5′-3′) No. (5′-3′) Temperature [° C.] CU- 1839 GCTAAGGAAGTCCT 1926 AAAACTGAGCACAGGACTT 60 1137 GTGCTCAGTTTT CCTTAGC CU- 1840 TCGATTCCCGGCCC 1927 TGGTGCATGGGCCGGGAAT 55 1142 ATGCACCA CGA CU- 1841 CCCCCCACTGCTAA 1928 AAGCCAGTCAAATTTAGCA 50 1153 ATTTGACTGGCTT GTGGGGGG CU- 1842 ATCCCACTCCTGAC 1929 TGGTGTCAGGAGTGGGAT 50 1173 ACCA CU- 1843 AGTCCCATCTGGGT 1930 TGGCGACCCAGATGGGACT 55 1241 CGCCA CU- 1844 TCCCCGGCACCTCC 1931 TGGTGGAGGTGCCGGGGA 55 1254 ACCA CU- 1845 TCGATTCCCGGCCA 1932 TGGTGCATTGGCCGGGAAT 60 1276 ATGCACCA CGA CU- 1846 ATCCCACTTCTGAC 1933 TGGTGTCAGAAGTGGGAT 50 1303 ACCA CU- 1847 GACGAGGTGGCCGA 1934 AACCACTCGGCCACCTCGT 60 1368 GTGG C CU- 1848 GCATTGGTGGTTCA 1935 TCTACCACTGAACCACCAA 60 1403 GTGGTAGA TGC CU- 1849 GCGGGTGATGCGAA 1936 GCTCAGACTCCAGTTCGCA 50 1513 CTGGAGTCTGAGC TCACCCGC Seq SS ID mature miRNA Seq ID RTFS primer primer ID No. sequence (5′-3′) No. sequence (5′-3′) sequence (5′-3′) CU- 1850 CCCGGGTTTCGGCA 1937 TGTCAGGCAACCGTATTCA SEQ ID NO: 2013 1130 CCA CCGTGAGTGGTTGGTGC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCCC GGGTTTCG CU- 1851 GCCGGGTACTTTCG 1938 TGTCAGGCAACCGTATTCA SEQ ID NO: 2014 1132 TATTTT CCGTGAGTGGTAAAATACG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGCC GGGTACTTT CU- 1852 GCTAAGGAAGTCCT 1939 TGTCAGGCAACCGTATTCA SEQ ID NO: 2015 1137 GTGCTCAGTTTT CCGTGAGTGGTAAAACTGA CGTCAGATGTCCGAGTA GC GAGGGGGAACGGCGGCT AAGGAAGTCCTGT CU- 1853 TATCAATGATGCTT 1940 TGTCAGGCAACCGTATTCA SEQ ID NO: 2016 1138 CTGAGA CCGTGAGTGGTTCTCAG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTAT CAATGATGCTT CU- 1854 TCGATTCCCGGCCC 1941 TGTCAGGCAACCGTATCAC SEQ ID NO: 2017 1142 ATGCACCA CGTGAGTGGTTTGGTGC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCG ATTCCCGGCCCAT CU- 1855 AGAAAGGCCGAATT 1942 TGTCAGGCAACCGTATTCA SEQ ID NO: 2018 1146 TTA CCGTGAGTG[GTTAAAATT CGTCAGATGTCCGAGTA CGG GAGGGGGAACGGCGAGA AAGGCCG CU- 1856 TGGTGTGGTCTGTT 1943 TGTCAGGCAACCGTATTCA SEQ ID NO: 2019 1148 GTTTT CCGTGAGTGGTAAAACAAC CGTCAGATGTCCGAGTA AG GAGGGGGAACGGCGTGG TGTGGTCTG CU- 1857 CCCCCCACTGCTAA 1944 TGTCAGGCAACCGTATTCA SEQ ID NO: 2020 1153 ATTTGACTGGCTT CCGTGAGTGGTAAGCCA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCCC CCCACTGCTAAATTTG CU- 1858 TCCCCGCACCTCCA 1945 TGTCAGGCAACCGTATTCA SEQ ID NO: 2021 1155 CCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC CCGCACCT CU- 1859 GAGAGCGCTCGGTT 1946 TGTCAGGCAACCGTATTCA SEQ ID NO: 2022 1164 TTT CCGTGAGTGGTAAAAACCG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGAG AGCGCT CU- 1860 ATCCCACTCCTGAC 1947 TGTCAGGCAACCGTATTCA SEQ ID NO: 2023 1173 ACCA CCGTGAGTGGTTGGTGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGATC CCACTCCTG CU- 1861 GGCGTGATTCATAC 1948 TGTCAGGCAACCGTATTCA SEQ ID NO: 2024 1175 CTTTT CCGTGAGTGGTAAAAGGTA CGTCAGATGTCCGAGTA TG GAGGGGGAACGGCGGGC GTGATTCAT CU- 1862 AGGGTGTGCGTGTT 1949 TGTCAGGCAACCGTATTCA SEQ ID NO: 2025 1178 TTT CCGTGAGTG[GTAAAAACA CGTCAGATGTCCGAGTA CGC GAGGGGGAACGGCGAGG GTGTGCGT CU- 1863 AACCGAGCGTCCAA 1950 TGTCAGGCAACCGTATTCA SEQ ID NO: 2026 1180 GCTCTTTCCATTTT CCGTGAGTGGTAAAATG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGAAC CGAGCGTCCAAGCTCT CU- 1864 TCCCCGACACCTCC 1951 TGTCAGGCAACCGTATTCA SEQ ID NO: 2027 1186 ACCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC CCGACACCT CU- 1865 GCCCGCATCCTCCA 1952 TGTCAGGCAACCGTATTCA SEQ ID NO: 2028 1191 CCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGCC CGCATCCT CU- 1866 ATGTGGTGGCTTAC 1953 TGTCAGGCAACCGTATTCA SEQ ID NO: 2029 1197 TTTT CCGTGAGTGGTAAAAGTAA CGTCAGATGTCCGAGTA GC GAGGGGGAACGGCGATG TGGTGGCTT CU- 1867 TCCCCGGCACTTCC 1954 TGTCAGGCAACCGTATTCA SEQ ID NO: 2030 1212 ACCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC CCGGCACTT CU- 1868 TCACCCCATAAACA 1955 TGTCAGGCAACCGTATTCA SEQ ID NO: 2031 1213 CCA CCGTGAGTGGTTGGTGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCA CCCCATAA CU- 1869 TTCCCCGACGGGGA 1956 TGTCAGGCAACCGTATTCA SEQ ID NO: 2032 1220 GCCA CCGTGAGTGGTTGGCTC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTTC CCCGACGGG CU- 1870 TGTGCTCCGGAGTT 1957 TGTCAGGCAACCGTATTCA SEQ ID NO: 2033 1221 ACCTCGTTT CCGTGAGTGGTAAACGAGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTGT GCTCCGGAGTTA CU- 1871 TCACGTCGGGGTCA 1958 TGTCAGGCAACCGTATTCA SEQ ID NO: 2034 1222 CCA CCGTGAGTGGTTGGTGA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCA CGTCGGGG CU- 1872 AGTCCCATCTGGGT 1959 TGTCAGGCAACCGTATTCA SEQ ID NO: 2035 1241 CGCCA CCGTGAGTGGTTGGCGA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGAGT CCCATCTGGG CU- 1873 TCCCCGTACGGGCC 1960 TGTCAGGCAACCGTATTCA SEQ ID NO: 2036 1242 ACCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC CCGTACGGG CU- 1874 GTCCCTTCGTGGTC 1961 TGTCAGGCAACCGTATTCA SEQ ID NO: 2037 1243 GCCA CCGTGAGTGGTTGGCGA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGTC CCTTCGTGG CU- 1875 GTCAGGATGGCCGA 1962 TGTCAGGCAACCGTATTCA SEQ ID NO: 2038 1244 GCGGTCT CCGTGAGTGGTAGACCG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGTC AGGATGGCCGAG CU- 1876 AGGGGGGTAAAAAA 1963 TGTCAGGCAACCGTATTCA SEQ ID NO: 2039 1246 AAA CCGTGAGTGGTTTTTTT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGAGG GGGGTAAA CU- 1877 CCCACCCAGGGACG 1964 TGTCAGGCAACCGTATTCA SEQ ID NO: 2040 1251 CCA CCGTGAGTGGTTGGCGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCCC ACCCAGGG CU- 1878 TCCCCGGCACCTCC 1965 TGTCAGGCAACCGTATTCA SEQ ID NO: 2041 1254 ACCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC CCGGCACCT CU- 1879 GAGGGGGACCAAAA 1966 TGTCAGGCAACCGTATTCA SEQ ID NO: 2042 1264 AAAA CCGTGAGTGGTTTTTTTTT CGTCAGATGTCCGAGTA GG GAGGGGGAACGGCGGAG GGGGA CU- 1880 TACCGAGCCTGGTG 1967 TGTCAGGCAACCGTATTCA SEQ ID NO: 2043 1269 ATAGC CCGTGAGTGGTGCTATC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTAC CGAGCCTGGT CU- 1881 TCGATTCCCGGCCA 1968 TGTCAGGCAACCGTATTCA SEQ ID NO: 2044 1276 ATGCACCA CCGTGAGTGGTTGGTGCAT CGTCAGATGTCCGAGTA TG GAGGGGGAACGGCGTCG ATTCCCGGC CU- 1882 GAGCCATGATGATA 1969 TGTCAGGCAACCGTATTCA SEQ ID NO: 2045 1277 CCACTGAGC CCGTGAGTGGTGCTCAG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGAG CCATGATGATACCA CU- 1883 TAACGGCCGCGGTA 1970 TGTCAGGCAACCGTATTCA SEQ ID NO: 2046 1278 CCC CCGTGAGTGGTGGGTAC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTAA CGGCCGCG CU- 1884 GCAGCGCCAGCCTC 1971 TGTCAGGCAACCGTATTCA SEQ ID NO: 2047 1281 CCGCCCTAC CCGTGAGTGGTGTAGGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGCA GCGCCAGCCTCCCG CU- 1885 CGTCCATGATGTTC 1972 TGTCAGGCAACCGTATTCA SEQ ID NO: 2048 1288 CGCAA CCGTGAGTGGTTTGCGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCGT CCATGATGTT CU- 1886 AGCAGTGATGTCCT 1973 TGTCAGGCAACCGTATTCA SEQ ID NO: 2049 1293 GAAAATTCTGAAG CCGTGAGTGGTCTTCAGAA CGTCAGATGTCCGAGTA TTT GAGGGGGAACGGCGAGC AGTGATGTCCTGA CU- 1887 AAAGGACCTGGCGG 1974 TGTCAGGCAACCGTATTCA SEQ ID NO: 2050 1294 TGCTTC CCGTGAGTGGTGAAGCA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGAAA GGACCTGGCGG CU- 1888 ATCCCGGACGAGCC 1975 TGTCAGGCAACCGTATTCA SEQ ID NO: 2051 1298 CCCA CCGTGAGTGGTTGGGGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGATC CCGGACGAG CU- 1889 TCCTCACACGGGGC 1976 TGTCAGGCAACCGTATTCA SEQ ID NO: 2052 1300 ACCA CCGTGAGTGGTTGGTGC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC TCACACGGG CU- 1890 ATCCCACTTCTGAC 1977 TGTCAGGCAACCGTATTCA SEQ ID NO: 2053 1303 ACCA CCGTGAGTGGTTGGTGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGATC CCACTTCTG CU- 1891 ACCCCACTATGCTT 1978 TGTCAGGCAACCGTATTCA SEQ ID NO: 2054 1307 AGCCCT CCGTGAGTGGTAGGGCT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGACC CCACTATGCTT CU- 1892 TGTATTGTGAGACA 1979 TGTCAGGCAACCGTATTCA SEQ ID NO: 2055 1323 TTC CCGTGAGTGGTGAATGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTGT ATTGTGAG CU- 1893 TCTCGGTGGAACCT 1980 TGTCAGGCAACCGTATTCA SEQ ID NO: 2056 1324 CCA CCGTGAGTGGTTGGAGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCT CGGTGGAA CU- 1894 ATCCCCAGCACCTC 1981 TGTCAGGCAACCGTATTCA SEQ ID NO: 2057 1339 CACCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGATC CCCAGCACCT CU- 1895 AGAACACTACGAGC 1982 TGTCAGGCAACCGTATTCA SEQ ID NO: 2058 1345 CACA CCGTGAGTGGTTGTGGC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGAGA ACACTACGA CU- 1896 ACCCCACTTCTGGT 1983 TGTCAGGCAACCGTATTCA SEQ ID NO: 2059 1352 ACCA CCGTGAGTGGTTGGTACCA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGACC CCACTTC CU- 1897 CGTTCGCGCTTTCC 1984 TGTCAGGCAACCGTATTCA SEQ ID NO: 2060 1363 CCTG CCGTGAGTGGTCAGGGGAA CGTCAGATGTCCGAGTA AG GAGGGGGAACGGCGCGT TCGCG CU- 1898 GACGAGGTGGCCGA 1985 TGTCAGGCAACCGTATTCA SEQ ID NO: 2061 1368 GTGG CCGTGAGTGGTCCACTC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGAC GAGGTGGCC CU- 1899 TCCCCGGCATCTCC 1986 TGTCAGGCAACCGTATTCA SEQ ID NO: 2062 1369 ACCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC CCGGCATCT CU- 1900 CTGATTGCTCCTAT 1987 TGTCAGGCAACCGTATTCA SEQ ID NO: 2063 1370_MOD CTGATT CCGTGAGTGGTAATCAG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCTG ATTGCTCCTAT CU- 1901 TCTAGAGGAGCCTG 1988 TGTCAGGCAACCGTATTCA SEQ ID NO: 2064 1371 TTCTGTA CCGTGAGTGGTTACAGA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCT AGAGGAGCCTGT CU- 1902 TCGGGTGCGAGAGG 1989 TGTCAGGCAACCGTATTCA SEQ ID NO: 2065 1379 TCCCGGGT CCGTGAGTGGTACCCGGGA CGTCAGATGTCCGAGTA CC GAGGGGGAACGGCGTCG GGTGCGAGA CU- 1903 ATAGGTTTGGTCCT 1990 TGTCAGGCAACCGTATTCA SEQ ID NO: 2066 1380 AGCCTTTCT CCGTGAGTGGTAGAAAG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGATA GGTTTGGTCCTAGC CU- 1904 TCGATTCCCGGTCA 1991 TGTCAGGCAACCGTATTCA SEQ ID NO: 2067 1381 GGGAACCA CCGTGAGTGGTTGGTTC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCG ATTCCCGGTCAGG CU- 1905 TCCTCGTTAGTATA 1992 TGTCAGGCAACCGTATTCA SEQ ID NO: 2068 1382 GTGGTGAGTATCCC CCGTGAGTGGTGGGATA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC TCGTTAGTATAGTGGT CU- 1906 TCCCTGGTGGTCTA 1993 TGTCAGGCAACCGTATTCA SEQ ID NO: 2069 1388 GTGGTTAGGATTCG CCGTGAGTGGTCGAATC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC CTGGTGGTCTAGTGGT CU- 1907 TAAGTGTTTGTGGG 1994 TGTCAGGCAACCGTATTCA SEQ ID NO: 2070 1396 TTA CCGTGAGTGGTTAACCCAC CGTCAGATGTCCGAGTA A GAGGGGGAACGGCGTAA GTGTT CU- 1908 GCATTGGTGGTTCA 1995 TGTCAGGCAACCGTATTCA SEQ ID NO: 2071 1403 GTGGTAGA CCGTGAGTGGTTCTACC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGCA TTGGTGGTTCAGT CU- 1909 TGGTTATCACGTTC 1996 TGTCAGGCAACCGTATTCA SEQ ID NO: 2072 1440 GCC CCGTGAGTGGTGGCGAACG CGTCAGATGTCCGAGTA T GAGGGGGAACGGCGTGG TTATC CU- 1910 CCCTGCTCGCTGCG 1997 TGTCAGGCAACCGTATTCA SEQ ID NO: 2073 1453 CCA CCGTGAGTGGTTGGCGC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCCC TGCTCGCT CU- 1911 TTCTCACTACTGCA 1998 TGTCAGGCAACCGTATTCA SEQ ID NO: 2074 1457 CTTGACTA CCGTGAGTGGTTAGTCA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTTC TCACTACTGCACT CU- 1912 CTCCTGGCTGGCTC 1999 TGTCAGGCAACCGTATTCA SEQ ID NO: 2075 1470 GCCA CCGTGAGTGGTTGGCGA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCTC CTGGCTGGC CU- 1913 CTCCCACTGCTTCA 2000 TGTCAGGCAACCGTATTCA SEQ ID NO: 2076 1477 CTTGACTAGC CCGTGAGTGGTGCTAGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCTC CCACTGCTTCACTTG CU- 1914 CTGCTGTGATGACA 2001 TGTCAGGCAACCGTATTCA SEQ ID NO: 2077 1486 TTC CCGTGAGTGGTGAATGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCTG CTGTGATG CU- 1915 TCCTGCCGCGGTCG 2002 TGTCAGGCAACCGTATTCA SEQ ID NO: 2078 1488 CCA CCGTGAGTGGTTGGCGA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTCC TGCCGCGG CU- 1916 GCGGGTGATGCGAA 2003 TGTCAGGCAACCGTATTCA SEQ ID NO: 2079 1513 CTGGAGTCTGAGC CCGTGAGTGGTGCTCAG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGCG GGTGATGCGAACTGGA CU- 1917 CCCCCACAACCGCG 2004 TGTCAGGCAACCGTATTCA SEQ ID NO: 2080 1524 CTTGACTAGC CCGTGAGTGGTGCTAGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCCC CCACAACCGCGCTTG CU- 1918 TAGGGGTATGATTC 2005 TGTCAGGCAACCGTATTCA SEQ ID NO: 2081 1528 TCGCT CCGTGAGTGGTAGCGAG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGTAG GGGTATGATT CU- 1919 GGCTGGTCCGAGTG 2006 TGTCAGGCAACCGTATTCA SEQ ID NO: 2082 1538 CAGTGGTGTTTA CCGTGAGTGGTTAAACACC CGTCAGATGTCCGAGTA AC GAGGGGGAACGGCGGGC TGGTCCGAGTGCAGTG CU- 1920 GGCTGGTCCGATGG 2007 TGTCAGGCAACCGTATTCA SEQ ID NO: 2083 1542 TAGTGGGTT CCGTGAGTGGTAACCCA CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGGC TGGTCCGATGGTAG CU- 1921 CCACGAGGAAGAGA 2008 TGTCAGGCAACCGTATTCA SEQ ID NO: 2084 1545 GGTAGC CCGTGAGTGGTGCTACCTC CGTCAGATGTCCGAGTA T GAGGGGGAACGGCGCCA CGAGGAAG CU- 1922 CGGAAGCGTGCTGG 2009 TGTCAGGCAACCGTATTCA SEQ ID NO: 2085 1550 GCCC CCGTGAGTGGTGGGCCC CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCGG AAGCGTGCT CU- 1923 GGAGAGAACGCGGT 2010 TGTCAGGCAACCGTATTCA SEQ ID NO: 2086 1557 CTGAGTGGT CCGTGAGTGGTACCACT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGGGA GAGAACGCGGTCTG CU- 1924 ATCCCCAGCATCTC 2011 TGTCAGGCAACCGTATTCA SEQ ID NO: 2087 1570 CACCA CCGTGAGTGGTTGGTGG CGTCAGATGTCCGAGTA GAGGGGGAACGGCGATC CCCAGCATCT CU- 1925 CCCCCCACTGCTAA 2012 TGTCAGGCAACCGTATTCA SEQ ID NO: 2088 1575 ATTTGACTGGA CCGTGAGTGGTTCCAGT CGTCAGATGTCCGAGTA GAGGGGGAACGGCGCCC CCCACTGCTAAATTTG Universal primer ID Universal primer sequences (5′-3′) MPF SEQ ID NO: 2089 TGTCAGGCAACCGTATTCACC MPR SEQ ID NO: 2090 CGTCAGATGTCCGAGTAGAGG Control primer sequences Control Primer ID (5′-3′) 5s_rRNA_FWD SEQ ID NO: 2091 GCCCGATCTCGTCTGATCT 5s_rRNA_REV SEQ ID NO: 2092 AGCCTACAGCACCCGGTATT

RNA blot. Total RNA and small RNA fractions were purified using the Trizol Reagent (Invitrogen) and the PureLink miRNA Isolation Kit (Invitrogen), respectively, following the manufacturer's indications. Electrophoresis was performed on 15% denaturing polyacrylamide gel and then RNA was transferred on Duralon UV membrane (Stratagene) using a semidry transfer apparatus. Pre-hybridization and hybridization were performed in 5×SSC, 20 mM Na₂HPO₄ pH7.2, 7% SDS, 3×Denhardt's Solution. Oligonucleotide probes were [γ-³²P]-ATP labeled by polynucleotide kinase (Fermentas). The list of oligonucleotides and their hybridization temperature is reported in Table S8. After over-night hybridization, membranes were washed at the same temperature in 3×SSC, 25 mM NaH₂PO₄ pH 7.5, 5% SDS, 10×Denhardt's Solution for 15-20′ and in 1× SSC, 1% SDS for 5′. Images were obtained by exposure to phosphoimager cassette and acquisition by Storm 840 Phosphoimager (Molecular Dynamics) and by film exposure for approximately 2 weeks.

Estimation of library complexity. A bootstrap technique was used to estimate the total number of miRNAs expressed in each library and the number of short-RNAs must be sequenced to achieve a complete coverage. Bootstrapping is a statistical technique for estimating properties of an “estimator” by measuring those properties in multiple subsets of the samples (Harrell, 2001; Hinkley, 1997). Specifically, we estimated the distribution of mature miRNAs obtained by random sub-sampling different size short-RNA libraries from each complete library. For each size N=10, 20, . . . N_(t), where N_(t) is the total number of short-RNAs in the library, we randomly sampled 1000 libraries of size N and computed the number r(N) of inferred miRNAs, resulting in a distribution p(r(N)) for which we could compute standard statistical parameters such as average, variance, mode and median. Based on this sampling, we can extrapolate p(r(N)) for increasing values of N to determine at which point it is no longer efficient to use larger values of N to increase miRNA coverage. To achieve this, we fitted the data to the parametric function ƒ(x)=K*(1−e^(−mx)).

Since we include both experimentally confirmed and putative mature miRNAs and since bootstrapping can produce optimistic results we expect that the estimated values constitute an upper boundary on the real library complexity. Based on this analysis, we estimated that the total numbers of mature miRNAs are: 129 (naïve), 154 (memory), 204 (centroblasts) and 189 (Ramos). Thus, the libraries sequenced in this study cover respectively 90.7% (naïve), 88.3% (memory), 85.8% (centroblasts), and 91% (Ramos) of the expressed miRNAs in these cellular phenotypes. FIG. 23 gives the 95% confidence intervals for p(r(N)) at each sampling point, in addition to the curve of the associated extrapolated function for each library. Clearly, the bootstrap analysis estimate of the total number of miRNA is correct only if the abundance of the miRNAs expressed in the sampled populations closely matches that of known miRNA in miRBase. This is not unreasonable if, as done here, only miRNAs that are specific to a B cell differentiation stage or transformation are considered. Thus, this does not estimate the total number of miRNA expressed across all human cell types, stages of differentiation and neoplastic transformations, which could be several fold larger than what was estimated from the B cell libraries.

Orthology and conservation analysis. We investigated conservation of known and predicted precursor and mature human miRNA in chimp (panTro2), monkey (rheMac2), dog (canFam2) mouse (mm8) and rat (rn4). We obtained 678 miRNA precursor sequences from miRBase (v.11.0), 666 mature miRNAs and 167 star sequences. In total, we obtained 947 locations for mature and star mirBase sequences. We predicted 388 precursors of which 114 match miRBase precursors and 274 are newly predicted. Categorizing these by their corresponding mature sequences, 255 precursors correspond to mature miRNAs that are not included in the miRBase and 133 precursors are associated with 103 predicted miRNAs that match miRBase miRNAs. Of the 274 newly predicted precursors, 19 associated with 8 mature sequences listed in miRBase database.

miRNA conservation has been repeatedly used to help identify putative miRNA mappings to genomes. To identify putative ortholog miRNAs we relied on UCSC-provided Blastz pairwise alignments between human and target species (Schwartz et al., 2003). We used two related but complementary methods: (1) map the mature human miRNA to its ortholog location as specified by pairwise alignment; and (2) map the precursor of the human miRNA to its ortholog location as specified by pairwise alignment, expanding the human region to include at least 80 bases from both sides of the mature region, and identifying regions in the target that match the sequence of the mature human miRNA.

Method 1 is the simplest but fails to account for alignment inaccuracies and local mutations that may shift the position of the mature sequence in the target species. Method 2 accounts for locally imperfect Blastz mapping, but relies on conservation of larger regions that may not be subject to the same selective pressure as the mature miRNA. Alignment-based mapping of the human mature miRNA to its target were required to have either perfect conservation of the entire mature miRNA sequence or conservation of seeds composed of seven bases starting from the second position of the human mature sequence followed by conservation of 3 bases starting from the 12th, 13th or 14th position as suggested by (Grimson et al., 2007) (Appendix Table 11). We scanned the entire mapped ortholog region for a match to the human mature sequence or to its seed.

miRNA target prediction and analysis. Target predictions for not previously reported miRNAs were performed by miRanda v1.0 (John et al., 2004) and RNA22 (Miranda et al., 2006) using recommended parameters with the exception of RNA22 energy threshold that was changed from default −25.0 kcal/mol to −20.0 kcal/mol.

In order to investigate the potential effect of miRNAs on the transcriptome, predicted targets were tested for enrichment in genes down-regulated in the same population over-expressing the tested miRNA. Over-expressed miRNA were selected based on a minimum frequency value>0.08 and a three-fold increase in their cloning frequency comparing CB vs naïve or memory B cell libraries. Genes differentially expressed across normal B cell populations were identified based on intensity fold change greater than 1.5, and p-value under 0.01 according to a non-parametric U test applied to six biological replicates per cell type (gene expression data are available from GEO database; GSE2350).

For each miRNA, using a Fisher exact test, we compared the numbers of down- and up-regulated predicted targets to down- and up-regulated genes that are not predicted targets. Setting a p-value threshold of 0.01, targets of most GC-specific miRNAs were significantly down regulated in CB. Conversely, targets of naïve- and memory-specific miRNAs were not significantly differentially regulated. Therefore the analysis was focused on targets of the 15 GC-specific miRNAs. Predicted targets of 8 out of 15 miRNAs showed significant enrichment (p-value<0.001) in genes down-regulated in GC compared to naïve B cells and 2 of them showed enrichment for genes down-regulated in a control population (memory compared to naïve) (Table 13). We can conclude that targets of GC-specific miRNAs are significantly more likely to be down regulated in CB than in naïve B cells with p<0.05 according to a Fisher exact test. Moreover, down-regulation p-values in CB were systematically lower than in memory (FIG. 26 and Table 13). Of the target sets for the 15 GC-specific miRNAs, 11 were more significantly down regulated in CB, 2 were more significantly down regulated in the control population (memory), and 2 were not down regulated in either (FIG. 26). Using down-regulation in memory as control, we therefore conclude that down-regulation p-values are lower for CB with p<0.05 according to a binomial test with an 11/15 rate under a null hypothesis of equally likely odds for greater down regulation. In summary, while targets of naïve and memory specific miRNAs were not found differentially expressed in our data, we were able to demonstrate that predicted targets of GC-specific miRNAs are enriched in genes that are down regulated in GC.

Correlation between cloning and microarray miRNA profiling. In order to compare cloning and microarray data, we focused on the 89 miRNAs for which both types of data were available. A significant correlation (p-value≦3.9e-28) was shown between cloning and miRNA microarray data as measured by Spearman correlation. The corresponding scatter plot is shown in FIG. 27. Furthermore, to investigate if miRNA cloning counts were predictive of differential expression as measured by miRNA microarray, we identified 39 miRNAs whose cloning frequency was at least 2 fold greater in one normal B cell subset relative to each of the remaining two subsets. Of these, 25 (64.1%) miRNAs were found to be over-expressed in the same B cell subset according to miRNA microarray profiling. Over-expression was measured using a one sided U test, with threshold corresponding to p<0.01. We used permutation testing to estimate the significance of the success rate, randomly shuffling expression labels while keeping clone frequencies unchanged. The distribution of confirmed clone predictions using the shuffled expression data had mean of 1.2% and standard deviation of 5.1%, corresponding to 12.2 standard deviations away from our prediction success rate and a p-value near zero. We conclude that miRNA cloning counts are predictive of miRNAs concentration levels and differential expression.

Immunoprecipitation. Immunoprecipitations were performed from Ramos cells grown in IMDM, 10% fetal bovine serum, 1% Penicillin/Streptomycin. 1-2×10̂8 cells were collected and resuspended in 1 ml lysis buffer (10 mM Tris pH 7.5, 2 mM MgCl₂, 10 mM KCl, 2.5 mM DTT, 1× protease inhibitors, 40 U/ul Ambion Superase-IN). Lysate supernatant was mixed with 500 ul ATP depletion mix (450 mM KCl, 100 mM glucose, 0.5 U/ul Sigma-Aldrich hexokinase). Cleared supernatant was divided equally between paramagnetic protein G beads (New England Biolabs) bound to either a monoclonal rat antibody raised against human Ago2 protein (Rudel et al., 2008) or total purified rat IgG (Sigma-Aldrich). Beads were incubated with lysate under rotation for 2 hours at 4° C., then washed three times with ice-cold lysis buffer and collected in Trizol (Invitrogen) for RNA extraction. RNA from three sequential immunoprecipitations was pooled and 1/10^(th) of yield was used for reverse transcription of each miRNA species using Superscript III First Strand Synthesis Kit (Invitrogen), in the presence of 0.2 μM RTFS primer (miRNA-specific primers, see Table S8). cDNA was also generated from reverse transcription in the presence of random hexamers to test expression of 5s rRNA. 1/10^(th) of the cDNA volume was used as template for SYBR (Applied Biosystems) qPCR amplification in the presence of 4 nM SS primer (miRNA-specific primers, see Table 14) and 0.4 μM each of MPF and MPR universal or 0.4 μM each of 5sRNA primers (Table 14). Each qPCR reaction was performed in triplicate. The tested miRNA were selected based on the availability of optimized qRT-PCR conditions among the ones detectable both by RNA blot and RT-PCR.

Accession numbers. The miRNA array profiles data are available from the GEO repository (GSE15144).

REFERENCES

-   Bartel, D. P. (2004). MicroRNAs: genomics, biogenesis, mechanism,     and function. Cell 116, 281-297. -   Basso, K., Margolin, A. A., Stolovitzky, G., Klein, U.,     Dalla-Favera, R., and Califano, A. (2005). Reverse engineering of     regulatory networks in human B cells. Nat Genet. 37, 382-390. -   Bentwich, I., et al. (2005). Identification of hundreds of conserved     and nonconserved human microRNAs. Nat Genet. 37, 766-770. -   Calabrese, J. M., Seila, A. C., Yeo, G. W., and Sharp, P. A. (2007).     RNA sequence analysis defines Dicer's role in mouse embryonic stem     cells. Proc Natl Acad Sci USA 104, 18097-18102. -   Calin, G. A., et al. (2002). Frequent deletions and down-regulation     of micro-RNA genes miR15 and miR16 at 13q14 in chronic lymphocytic     leukemia. Proc Natl Acad Sci USA 99, 15524-15529. -   Calin, G. A., Ferracin, M., Cimmino, A., Di Leva, G., Shimizu, M.,     Wojcik, S. E., Iorio, M. V., Visone, R., Sever, N. I., Fabbri, M.,     et al. (2005). A MicroRNA signature associated with prognosis and     progression in chronic lymphocytic leukemia. N Engl J Med 353,     1793-1801. -   Chen, C. Z., Li, L., Lodish, H. F., and Bartel, D. P. (2004).     MicroRNAs modulate hematopoietic lineage differentiation. Science     303, 83-86. -   Cummins, J. M., He, Y., Leary, R. J., Pagliarini, R., Diaz, L. A.,     Jr., Sjoblom, T., Barad, O., Bentwich, Z., Szafranska, A. E.,     Labourier, E., et al. (2006). The colorectal microRNAome. Proc Natl     Acad Sci USA 103, 3687-3692. -   Dorsett, Y., et al. (2008). MicroRNA-155 suppresses     activation-induced cytidine deaminase-mediated Myc-Igh     translocation. Immunity 28, 630-638. -   Eisen, M. B., Spellman, P. T., Brown, P. O., and Botstein, D.     (1998). Cluster analysis and display of genome-wide expression     patterns. Proc Natl Acad Sci USA 95, 14863-14868. -   Filipowicz, W., Bhattacharyya, S, N., and Sonenberg, N. (2008).     Mechanisms of post-transcriptional regulation by microRNAs: are the     answers in sight? Nat Rev Genet. 9, 102-114. -   Griffiths-Jones, S. (2006). miRBase: the microRNA sequence database.     Methods Mol Biol 342, 129-138. -   Griffiths-Jones, S., Grocock, R. J., van Dongen, S., Bateman, A.,     and Enright, A. J. (2006). miRBase: microRNA sequences, targets and     gene nomenclature. Nucleic Acids Res 34, D140-144. -   Grimson, A., Farh, K. K., Johnston, W. K., Garrett-Engele, P.,     Lim, L. P., and Bartel, D. P. (2007). MicroRNA targeting specificity     in mammals: determinants beyond seed pairing. Mol Cell 27, 91-105. -   Harrell, F. E. (2001). Regression modeling strategies: with     applications to linear models, logistic regression, and survival     analysis (N.Y., Springer). -   Hartigan, J. A. (1975). Clustering Algorithms (New York, Wiley). -   He, L., et al., (2005). A microRNA polycistron as a potential human     oncogene. Nature 435, 828-833. -   Hinkley, A. C. D. a. D. V. (1997). Bootstrap Methods and their     Applications (New York, Cambridge University Press). -   John, B., Enright, A. J., Aravin, A., Tuschl, T., Sander, C., and     Marks, D. S. (2004). Human MicroRNA targets. PLoS Biol 2, e363. -   Kawahara, Y., Zinshteyn, B., Sethupathy, P., Iizasa, H.,     Hatzigeorgiou, A. G., and Nishikura, K. (2007). Redirection of     silencing targets by adenosine-to-inosine editing of miRNAs. Science     315, 1137-1140. -   Kim, V. N. (2005). MicroRNA biogenesis: coordinated cropping and     dicing. Nat Rev Mol Cell Biol 6, 376-385. -   Klein, U., and Dalla-Favera, R. (2008). Germinal centres: role in     B-cell physiology and malignancy. Nat Rev Immunol 8, 22-33. -   Klein, U., Tu, Y., Stolovitzky, G. A., Keller, J. L., Haddad, J.,     Jr., Miljkovic, V., Cattoretti, G., Califano, A., and     Dalla-Favera, R. (2003). Transcriptional analysis of the B cell     germinal center reaction. Proc Natl Acad Sci USA 100, 2639-2644. -   Kuppers, R., and Dalla-Favera, R. (2001). Mechanisms of chromosomal     translocations in B cell lymphomas. Oncogene 20, 5580-5594. -   Landgraf, P., Rusu, M., Sheridan, R., Sewer, A., Iovino, N., Aravin,     A., Pfeffer, S., Rice, A., Kamphorst, A. O., Landthaler, M., et al.     (2007). A mammalian microRNA expression atlas based on small RNA     library sequencing. Cell 129, 1401-1414. -   Lau, N. C., Lim, L. P., Weinstein, E. G., and Bartel, D. P. (2001).     An abundant class of tiny RNAs with probable regulatory roles in     Caenorhabditis elegans. Science 294, 858-862. -   Lee, E. J., Baek, M., Gusev, Y., Brackett, D. J., Nuovo, G. J., and     Schmittgen, T. D. (2007). Systematic evaluation of microRNA     processing patterns in tissues, cell lines, and tumors. Rna 14,     35-42. -   Li, Q. J., Chau, J., Ebert, P. J., Sylvester, G., Min, H., Liu, G.,     Braich, R., Manoharan, M., Soutschek, J., Skare, P., et al. (2007).     miR-181a is an intrinsic modulator of T cell sensitivity and     selection. Cell 129, 147-161. -   Lu, J., et al. (2005). MicroRNA expression profiles classify human     cancers. Nature 435, 834-838. -   Luciano, D. J., Mirsky, H., Vendetti, N. J., and Maas, S. (2004).     RNA editing of a miRNA precursor. Rna 10, 1174-1177. -   Michael, M. Z., SM, O. C., van Holst Pellekaan, N. G., Young, G. P.,     and James, R. J. (2003). Reduced accumulation of specific microRNAs     in colorectal neoplasia. Mol Cancer Res 1, 882-891. -   Miranda, K. C., Huynh, T., Tay, Y., Ang, Y. S., Tam, W. L.,     Thomson, A. M., Lim, B., and Rigoutsos, I. (2006). A pattern-based     method for the identification of MicroRNA binding sites and their     corresponding heteroduplexes. Cell 126, 1203-1217. -   Mourelatos, Z., Dostie, J., Paushkin, S., Sharma, A., Charroux, B.,     Abel, L., Rappsilber, J., Mann, M., and Dreyfuss, G. (2002). miRNPs:     a novel class of ribonucleoproteins containing numerous microRNAs.     Genes Dev 16, 720-728. -   Neilson, J. R., Zheng, G. X., Burge, C. B., and Sharp, P. A. (2007).     Dynamic regulation of miRNA expression in ordered stages of cellular     development. Genes Dev 21, 578-589. -   Rodriguez, A., Vigorito, E., Clare, S., Warren, M. V., Couttet, P.,     Soond, D. R., van Dongen, S., Grocock, R. J., Das, P. P., Miska, E.     A., et al. (2007). Requirement of bic/microRNA-155 for normal immune     function. Science 316, 608-611. -   Schwartz, S., Kent, W. J., Smit, A., Zhang, Z., Baertsch, R.,     Hardison, R. C., Haussler, D., and Miller, W. (2003). Human-mouse     alignments with BLASTZ. Genome Res 13, 103-107. -   Sharbati-Telurani, S., Kutz-Lohroff, B., Bergbauer, R., Scholven,     J., and Einspanier, R. (2008). miR-Q: a novel quantitative RT-PCR     approach for the expression profiling of small RNA molecules such as     miRNAs in a complex sample. BMC Mol Biol 9, 34. -   Teng, G., et al. (2008). MicroRNA-155 is a negative regulator of     activation-induced cytidine deaminase. Immunity 28, 621-629. -   Thai, T. H., et al. (2007). Regulation of the germinal center     response by microRNA-155. Science 316, 604-608. -   Thomson, J. M., Newman, M., Parker, J. S., Morin-Kensicki, E. M.,     Wright, T., and Hammond, S. M. (2006). Extensive     post-transcriptional regulation of microRNAs and its implications     for cancer. Genes Dev 20, 2202-2207. -   Xiao, C., Calado, D. P., Gaiter, G., That, T. H., Patterson, H. C.,     Wang, J., Rajewsky, N., Bender, T. P., and Rajewsky, K. (2007).     MiR-150 Controls B Cell Differentiation by Targeting the     Transcription Factor c-Myb. Cell 131, 146-159 -   Griffiths-Jones, S. (2006). miRBase: the microRNA sequence database.     Methods Mol Biol 342, 129-138. -   Griffiths-Jones, S., Grocock, R. J., van Dongen, S., Bateman, A.,     and Enright, A. J. (2006). miRBase: microRNA sequences, targets and     gene nomenclature. Nucleic Acids Res 34, D140-144. -   Grimson, A., Farh, K. K., Johnston, W. K., Garrett-Engele, P.,     Lim, L. P., and Bartel, D. P. (2007). MicroRNA targeting specificity     in mammals: determinants beyond seed pairing. Mol Cell 27, 91-105. -   Harrell, F. E. (2001). Regression modeling strategies: with     applications to linear models, logistic regression, and survival     analysis (N.Y., Springer). -   Hinkley, A. C. D. a. D. V. (1997). Bootstrap Methods and their     Applications (New York, Cambridge University Press). -   John, B., Enright, A. J., Aravin, A., Tuschl, T., Sander, C., and     Marks, D. S. (2004). Human MicroRNA targets. PLoS Biol 2, e363. -   Landgraf, P., Rusu, M., Sheridan, R., Sewer, A., Iovino, N., Aravin,     A., Pfeffer, S., Rice, A., Kamphorst, A. O., Landthaler, M., et al.     (2007). A mammalian microRNA expression atlas based on small RNA     library sequencing. Cell 129, 1401-1414. -   Miranda, K. C., Huynh, T., Tay, Y., Ang, Y. S., Tam, W. L.,     Thomson, A. M., Lim, B., and Rigoutsos, I. (2006). A pattern-based     method for the identification of MicroRNA binding sites and their     corresponding heteroduplexes. Cell 126, 1203-1217. -   Rudel, S., Flatley, A., Weinmann, L, Kremmer, E., and Meister, G.     (2008). A multifunctional human Argonaute2-specific monoclonal     antibody. Rna 14, 1244-1253. -   Schwartz, S., Kent, W. J., Smit, A., Zhang, Z., Baertsch, R.,     Hardison, R. C., Haussler, D., and Miller, W. (2003). Human-mouse     alignments with BLASTZ. Genome Res 13, 103-107.

APPENDIX

TABLE 11 Analysis of cross-species conservation for miRNAs. Table displays results for conservation of (1) full-lenght mature miRNA sequences, (2) seed of the mature sequence. (1) Conservation of full-length mature miRNA sequence miRNA identified in B cell libraries and deposited in miRBase database Seq ID Conservation ID Genomic Coordinates No. Sequence Chimp Monkey Dog Mouse Rat CU-1001 chr11: 121522485-121522507 2093 TGAGGTAGTAGGTTGTATAGTT Yes Yes Yes Yes Yes CU-1001 chr9: 95978064-95978086 2094 TGAGGTAGTAGGTTGTATAGTT Yes Yes Yes Yes Yes CU-1003 chr22: 44888234-44888256 2095 TGAGGTAGTAGGTTGTGTGGTT Yes Yes Yes Yes Yes CU-1004 chr9: 95980943-95980965 2096 AGAGGTAGTAGGTTGCATAGTT Yes Yes Yes Yes Yes CU-1005 chr19: 56887857-56887879 2097 TGAGGTAGGAGGTTGTATAGTT Yes Yes Yes Yes Yes CU-1006 chrX: 53600931-53600953 2098 TGAGGTAGTAGATTGTATAGTT Yes Yes Yes Yes Yes CU-1007 chr3: 52277391-52277413 2099 TGAGGTAGTAGTTTGTACAGTT Yes Yes Yes Yes No CU-1008 chr12: 61283737-61283759 2100 TGAGGTAGTAGTTTGTGCTGTT Yes Yes Yes Yes Yes CU-1009 chr1: 65296711-65296733 2101 TACAGTACTGTGATAACTGAAG Yes Yes Yes Yes Yes CU-1009 chr9: 4840344-4840366 2102 TACAGTACTGTGATAACTGAAG Yes Yes Yes No No CU-1010 chr20: 3846187-3846210 2103 AGCAGCATTGTACAGGGCTATGA Yes Yes Yes Yes Yes CU-1011 chr7: 99529562-99529582 2104 CCGCACTGTGGGTACTTGCT Yes Yes Yes Yes Yes CU-1012 chr7: 99529601-99529622 2105 TAAAGTGCTGACAGTGCAGAT Yes Yes Yes Yes Yes CU-1014 chr19: 56888332-56888356 2106 TCCCTGAGACCCTTTAACCTGTGA Yes Yes Yes Yes Yes CU-1015 chr21: 16884443-16884465 2107 TCCCTGAGACCCTAACTTGTGA Yes Yes Yes Yes Yes CU-1016 chr6: 131417431-131417449 2108 GTCCCTGTTCGGGCGCCA No Yes No No No CU-1016 chr19: 62716222-62716240 2109 GTCCCTGTTCGGGCGCCA Yes No No No No CU-1017 chr1: 150066843-150066860 2110 GTGGGGGAGAGGCTGTA No No No No No CU-1018 chr7: 35602718-35602735 2111 TCCCACCGCTGCCACCA No No No No No CU-1018 chr2: 72555764-72555781 2112 TCCCACCGCTGCCACCA No No No No No CU-1018 chrX: 55565708-55565725 2113 TCCCACCGCTGCCACCA No No No No No CU-1018 chr1: 225154598-225154615 2114 TCCCACCGCTGCCACCA No No No No No CU-1018 chr11: 95714259-95714276 2115 TCCCACCGCTGCCACCA No No No No No CU-1018 chr7: 5368308-5368325 2116 TCCCACCGCTGCCACCA No No No No No CU-1018 chr6: 140362954-140362971 2117 TCCCACCGCTGCCACCA No No No No No CU-1019 chr2: 136139485-136139506 2118 TCACAGTGAACCGGTCTCTTT Yes Yes Yes Yes Yes CU-1021 chr1: 159701881-159701904 2119 GCATGGGTGGTTCAGTGGTAGAA Yes Yes No No No CU-1021 chr1: 159694521-159694544 2120 GCATGGGTGGTTCAGTGGTAGAA Yes Yes No No No CU-1021 chr1: 159687090-159687113 2121 GCATGGGTGGTTCAGTGGTAGAA Yes Yes No No No CU-1021 chr21: 17749025-17749048 2122 GCATGGGTGGTTCAGTGGTAGAA Yes Yes No No No CU-1021 chr1: 159679717-159679740 2123 GCATGGGTGGTTCAGTGGTAGAA No Yes Yes No No CU-1022 chr22: 20337642-20337664 2124 CAGTGCAATGATGAAAGGGCAT Yes Yes Yes Yes Yes CU-1023 chr3: 44130729-44130753 2125 AGCTGGTGTTGTGAATCAGGCCGT No No Yes Yes Yes CU-1024 chr16: 68524545-68524567 2126 TACCACAGGGTAGAACCACGGA Yes Yes Yes Yes Yes CU-1025 chr16: 68524506-68524527 2127 CAGTGGTTTTACCCTATGGTA Yes Yes Yes Yes Yes CU-1026 chr17: 53763604-53763627 2128 TGTAGTGTTTCCTACTTTATGGA Yes Yes Yes Yes Yes CU-1027 chr5: 159844956-159844978 2129 TGAGAACTGAATTCCATGGGTT Yes Yes Yes Yes Yes CU-1028 chr10: 104186266-104186290 2130 TGAGAACTGAATTCCATAGGCTGT Yes No Yes Yes Yes CU-1029 chr19: 54695901-54695922 2131 TCTCCCAACCCTTGTACCAGT Yes Yes Yes Yes Yes CU-1030 chr17: 17715007-17715028 2132 CTAGACTGAAGCTCCTTGAGG Yes Yes No No No CU-1030 chr7: 150838585-150838606 2133 CTAGACTGAAGCTCCTTGAGG Yes No No No No CU-1031 chrX: 53425327-53425349 2134 TCGAGGAGCTCACAGTCTAGTA Yes No No No No CU-1031 chr8: 141811902-141811924 2135 TCGAGGAGCTCACAGTCTAGTA Yes Yes Yes No No CU-1032 chr21: 25868165-25868188 2136 TTAATGCTAATCGTGATAGGGGT Yes Yes Yes No No CU-1033 chr13: 49521304-49521325 2137 TAGCAGCACATAATGGTTTGT Yes Yes Yes Yes No CU-1033 chr7: 3516339-3516360 2138 TAGCAGCACATAATGGTTTGT No No No No No CU-1034 chr3: 161605126-161605147 2139 CGAATCATTATTTGCTGCTCT Yes Yes Yes Yes Yes CU-1035 chr3: 161605088-161605110 2140 TAGCAGCACATCATGGTTTACA Yes Yes Yes Yes Yes CU-1037 chr3: 161605235-161605257 2141 TAGCAGCACGTAAATATTGGCG Yes Yes Yes Yes Yes CU-1037 chr13: 49521163-49521185 2142 TAGCAGCACGTAAATATTGGCG Yes Yes Yes Yes No CU-1038 chr13: 90800909-90800931 2143 ACTGCAGTGAAGGCACTTGTAG Yes No Yes No No CU-1039 chr13: 90800872-90800895 2144 CAAAGTGCTTACAGTGCAGGTAG Yes No Yes Yes Yes CU-1040 chr1: 197094822-197094842 2145 ACCATCGACCGTTGATTGTA Yes Yes Yes Yes Yes CU-1042 chr9: 126494579-126494603 2146 AACATTCAACGCTGTCGGTGAGTT Yes Yes Yes Yes Yes CU-1042 chr1: 197094858-197094882 2147 AACATTCAACGCTGTCGGTGAGTT Yes Yes Yes Yes Yes CU-1044 chr13: 90801051-90801073 2148 ACTGCCCTAAGTGCTCCTTCTG Yes No Yes Yes Yes CU-1045 chr13: 90801010-90801032 2149 TAAGGTGCATCTAGTGCAGATA Yes No Yes Yes Yes CU-1046 chr3: 49033108-49033131 2150 CAACGGAATCCCAAAAGCAGCTG Yes Yes Yes Yes Yes CU-1047 chr11: 64415251-64415271 2151 CTGACCTATGAATTGACAGC Yes Yes Yes Yes Yes CU-1050 chr16: 14305374-14305396 2152 AACTGGCCCTCAAAGTCCCGCT Yes Yes No No No CU-1052 chr17: 6861708-6861730 2153 TAGCAGCACAGAAATATTGGCA Yes Yes Yes Yes Yes CU-1053 chr1: 109943084-109943105 2154 TTCACCACCTTCTCCACCCAG Yes Yes Yes No No CU-1054 chr1: 170380354-170380377 2155 CCCAGTGTTCAGACTACCTGTTC Yes Yes Yes Yes Yes CU-1054 chr19: 10789144-10789167 2156 CCCAGTGTTCAGACTACCTGTTC Yes Yes Yes Yes No CU-1055 chr19: 10789105-10789126 2157 ACAGTAGTCTGCACATTGGTT Yes Yes Yes Yes No CU-1055 chr1: 170380317-170380338 2158 ACAGTAGTCTGCACATTGGTT Yes Yes Yes Yes Yes CU-1055 chr9: 130046845-130046866 2159 ACAGTAGTCTGCACATTGGTT Yes Yes Yes Yes No CU-1056 chr13: 90801193-90801216 2160 TGTGCAAATCTATGCAAAACTGA Yes No Yes Yes Yes CU-1057 chrX: 133131378-133131401 2161 TGTGCAAATCCATGCAAAACTGA Yes Yes Yes Yes Yes CU-1057 chr13: 90801499-90801522 2162 TGTGCAAATCCATGCAAAACTGA Yes Yes Yes Yes Yes CU-1061 chr13: 90801326-90801349 2163 TAAAGTGCTTATAGTGCAGGTAG Yes No Yes Yes Yes CU-1062 chrX: 133131545-133131568 2164 CAAAGTGCTTATAGTGCAGGTAG No No No No No CU-1064 chr17: 55273415-55273437 2165 TAGCTTATCAGACTGATGTTGA Yes Yes Yes Yes Yes CU-1065 chrX: 45490553-45490574 2166 AGCTACATTGTCTGCTGGGTT Yes Yes Yes Yes Yes CU-1066 chrX: 45491383-45491406 2167 AGCTACATCTGGCTACTGGGTCT No Yes Yes Yes Yes CU-1067 chrX: 65155503-65155525 2168 TGTCAGTTTGTCAAATACCCCA Yes Yes Yes Yes Yes CU-1068 chr19: 13808407-13808429 2169 ATCACATTGCCAGGGATTTCCA Yes Yes Yes Yes Yes CU-1069 chr9: 96887367-96887389 2170 ATCACATTGCCAGGGATTACCA Yes Yes Yes Yes Yes CU-1071 chr7: 99529129-99529151 2171 CATTGCACTTGTCTCGGTCTGA No Yes Yes Yes Yes CU-1072 chr12: 56504707-56504729 2172 TTCAAGTAATCCAGGATAGGCT Yes Yes Yes Yes No CU-1072 chr3: 37985907-37985929 2173 TTCAAGTAATCCAGGATAGGCT Yes Yes Yes Yes Yes CU-1073 chr2: 218975623-218975645 2174 TTCAAGTAATTCAGGATAGGTT Yes Yes Yes Yes Yes CU-1075 chr9: 96887607-96887627 2175 TTCACAGTGGCTAAGTTCTG Yes Yes Yes Yes Yes CU-1076 chr3: 189889315-189889337 2176 CACTAGATTGTGAGCTCCTGGA Yes Yes Yes No Yes CU-1077 chr3: 189889275-189889297 2177 AAGGAGCTCACAGTCTATTGAG Yes Yes Yes Yes Yes CU-1079 chr7: 130212046-130212068 2178 TAGCACCATCTGAAATCGGTTA No Yes Yes Yes Yes CU-1080 chr1: 206042417-206042440 2179 TAGCACCATTTGAAATCAGTGTT Yes Yes Yes Yes Yes CU-1081 chr1: 206041871-206041892 2180 TGACCGATTTCTCCTGGTGTT Yes Yes Yes Yes Yes CU-1082 chr1: 206041832-206041854 2181 TAGCACCATTTGAAATCGGTTA Yes Yes Yes Yes Yes CU-1083 chr6: 72170020-72170040 2182 TGTAAACATCCTCGACTGGA Yes Yes Yes Yes Yes CU-1084 chr8: 135881994-135882016 2183 TGTAAACATCCTACACTCAGCT Yes Yes Yes Yes Yes CU-1085 chr1: 40995558-40995581 2184 TGTAAACATCCTACACTCTCAGC Yes Yes Yes Yes Yes CU-1086 chr8: 135886343-135886365 2185 TGTAAACATCCCCGACTGGAAG Yes Yes Yes Yes Yes CU-1087 chr1: 40992629-40992653 2186 TGTAAACATCCTTGACTGGAAGCT Yes Yes Yes Yes Yes CU-1088 chr8: 22158432-22158448 2187 TGGGTTGAGAGGGCGA Yes Yes Yes Yes Yes CU-1089 chr16: 65793734-65793752 2188 CTGGCCCTCTCTGCCCTT Yes No Yes Yes Yes CU-1091 chr12: 94226386-94226407 2189 GCCCCTGGGCCTATCCTAGAA Yes Yes Yes Yes Yes CU-1092 chr7: 1029154-1029174 2190 TCCCTGTCCTCCAGGAGCTC Yes Yes Yes Yes No CU-1092 chr10: 22978473-22978493 2191 TCCCTGTCCTCCAGGAGCTC No No No No No CU-1093 chr14: 99645804-99645828 2192 TCTCACACAGAAATCGCACCCGTC Yes Yes Yes Yes Yes CU-1094 chr14: 99645763-99645783 2193 GGGGTGCTATCTGTGATTGA Yes Yes Yes Yes Yes CU-1095 chr1: 9134379-9134402 2194 TGGCAGTGTCTTAGCTGGTTGTT Yes Yes Yes Yes Yes CU-1096 chrX: 85045302-85045324 2195 TCCCCCAGGTGTGATTCTGATT Yes Yes Yes Yes Yes CU-1098 chr17: 26926609-26926631 2196 TAATGCCCCTAAAAATCCTTAT Yes Yes Yes Yes Yes CU-1098 chr16: 14310697-14310719 2197 TAATGCCCCTAAAAATCCTTAT Yes Yes Yes Yes Yes CU-1099 chr5: 149092584-149092605 2198 CTCCTGACTCCAGGTCCTGTG Yes Yes Yes No Yes CU-1100 chr17: 25468274-25468296 2199 AGCTCGGTCTGAGGCCCCTCAG Yes Yes Yes Yes Yes CU-1101 chr17: 25468238-25468260 2200 TGAGGGGCAGAGAGCGAGACTT Yes Yes Yes Yes Yes CU-1103 chr8: 41637118-41637140 2201 TCCTGTACTGAGCTGCCCCGAG Yes Yes Yes Yes No CU-1104 chr17: 6862021-6862042 2202 CAGCAGCACACTGTGGTTTGT Yes Yes Yes Yes Yes CU-1105 chrX: 138833988-138834006 2203 CGTCAACACTTGCTGGTT Yes Yes Yes Yes Yes CU-1106 chr4: 38546107-38546128 2204 CACGCTCATGCACACACCCAC No No Yes Yes No CU-1108 chr14: 65007623-65007643 2205 AGGGGGAAAGTTCTATAGTC Yes No No No No CU-1108 chr14: 65007586-65007606 2206 AGGGGGAAAGTTCTATAGTC Yes No No No No CU-1110 chr15: 68158819-68158840 2207 TGGGTTTACGTTGGGAGAACT No No No No No CU-1111 chr9: 85774506-85774527 2208 CAACAAATCACAGTCTGCCAT Yes Yes Yes Yes Yes CU-1113 chr9: 85774546-85774569 2209 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes Yes Yes CU-1113 chr15: 86956090-86956113 2210 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes Yes Yes CU-1113 chr19: 4721711-4721734 2211 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes No No CU-1115 chr13: 90801578-90801601 2212 AGGTTGGGATCGGTTGCAATGCT Yes No Yes No No CU-1116 chrX: 133131239-133131261 2213 TATTGCACTTGTCCCGGCCTGT Yes Yes Yes No No CU-1116 chr13: 90801615-90801637 2214 TATTGCACTTGTCCCGGCCTGT Yes Yes Yes Yes Yes CU-1117 chr1: 153431651-153431670 2215 TATTGCACTCGTCCCGGCC No Yes Yes Yes Yes CU-1118 chr7: 99529373-99529396 2216 CAAAGTGCTGTTCGTGCAGGTAG Yes Yes Yes Yes Yes CU-1119 chrX: 53599984-53600006 2217 TGAGGTAGTAAGTTGTATTGTT Yes Yes Yes Yes Yes CU-1124 chr17: 53763644-53763665 2218 CCCATAAAGTAGAAAGCACTA Yes Yes Yes Yes Yes CU-1125 chr3: 161605277-161605298 2219 ACCAATATTACTGTGCTGCTT Yes Yes No No No CU-1126 chr9: 126495825-126495848 2220 ACATTCATTGCTGTCGGTGGGTT Yes Yes Yes Yes Yes CU-1126 chr1: 197094675-197094698 2221 ACATTCATTGCTGTCGGTGGGTT Yes Yes Yes Yes Yes CU-1568 chr21: 16834028-16834046 2222 TGAGGTAGTAGGTTGTAT Yes Yes Yes Yes Yes CU-5001 chr9: 95980997-95981018 2223 CTATACGACCTGCTGCCTTTC Yes Yes Yes Yes Yes CU-5002 chr3: 49032596-49032618 2224 CATCGGGAATGTCGTGTCCGCC Yes Yes Yes Yes No CU-5016 chr3: 49032634-49032658 2225 AATGACACGATCACTCCCGTTGAG Yes Yes Yes Yes Yes new miRNA identified in B cell libraries Seq. ID Conservation ID Genomic Coordinates NO. Sequence Chimp Monkey Dog Mouse Rat CU-1130 chr4: 84650562-84650579 2226 CCCGGGTTTCGGCACCA Yes No No No No CU-1130 chr7: 152741807-152741824 2227 CCCGGGTTTCGGCACCA No No No No No CU-1132 chr12: 123990125-123990145 2228 GCCGGGTACTTTCGTATTTT No No No No No CU-1137 chr17: 8030990-8031016 2229 GCTAAGGAAGTCCTGTGCTCAGTTTT Yes No No No No CU-1142 chr5: 180625271-180625293 2230 TCGATTCCCGGCCCATGCACCA No No No No No CU-1142 chr21: 17748974-17748996 2231 TCGATTCCCGGCCCATGCACCA No No No No No CU-1142 chr1: 159687142-159687164 2232 TCGATTCCCGGCCCATGCACCA No No No No No CU-1142 chr1: 159701933-159701955 2233 TCGATTCCCGGCCCATGCACCA No No No No No CU-1142 chr1: 159679769-159679791 2234 TCGATTCCCGGCCCATGCACCA No No No No No CU-1142 chr1: 159694573-159694595 2235 TCGATTCCCGGCCCATGCACCA No No No No No CU-1146 chr16: 3142975-3142992 2236 AGAAAGGCCGAATTTTA No No No No No CU-1148 chr10: 5935660-5935679 2237 TGGTGTGGTCTGTTGTTTT Yes No No No No CU-1153 chr14: 22388241-22388268 2238 CCCCCCACTGCTAAATTTGACTGGCTT No No No No No CU-1153 chr17: 35653067-35653094 2239 CCCCCCACTGCTAAATTTGACTGGCTT Yes No No No No CU-1155 chr20: 58490320-58490337 2240 TCCCCGCACCTCCACCA Yes Yes No No No CU-1164 chr6: 29057409-29057426 2241 GAGAGCGCTCGGTTTTT No No No No No CU-1173 chr18: 1681856-1681874 2242 ATCCCACTCCTGACACCA Yes No No No No CU-1175 chr11: 59075015-59075034 2243 GGCGTGATTCATACCTTTT No No No No No CU-1178 chr6: 28723944-28723961 2244 AGGGTGTGCGTGTTTTT Yes No No No No CU-1180 chr19: 38359877-38359905 2245 AACCGAGCGTCCAAGCTCTTTCCATTTT No No No No No CU-1186 chr18: 73990174-73990192 2246 TCCCCGACACCTCCACCA No No No No No CU-1191 chr12: 46439968-46439985 2247 GCCCGCATCCTCCACCA Yes No No No No CU-1197 chr15: 38673296-38673314 2248 ATGTGGTGGCTTACTTTT No No No No No CU-1212 chr20: 60596937-60596955 2249 TCCCCGGCACTTCCACCA No No No No No CU-1213 chr3: 73875819-73875836 2250 TCACCCCATAAACACCA Yes Yes No No No CU-1220 chr1: 159706825-159706843 2251 TTCCCCGACGGGGAGCCA No No No No No CU-1220 chr1: 159692034-159692052 2252 TTCCCCGACGGGGAGCCA No No No No No CU-1220 chr1: 159677235-159677253 2253 TTCCCCGACGGGGAGCCA No No No No No CU-1220 chr1: 159699444-159699462 2254 TTCCCCGACGGGGAGCCA No No No No No CU-1220 chr1: 159684653-159684671 2255 TTCCCCGACGGGGAGCCA No No No No No CU-1221 chr17: 34564245-34564268 2256 TGTGCTCCGGAGTTACCTCGTTT No No No No No CU-1222 chrX: 70920902-70920919 2257 TCACGTCGGGGTCACCA Yes No No No No CU-1241 chr2: 167308360-167308379 2258 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chr1: 29814092-29814111 2259 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chrX: 51239676-51239695 2260 AGTCCCATCTGGGTCGCCA Yes Yes No No No CU-1241 chr13: 22997399-22997418 2261 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr6: 70235237-70235256 2262 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr6: 141377023-141377042 2263 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chr16: 21555749-21555768 2264 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr3: 97152533-97152552 2265 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chrX: 70638471-70638490 2266 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr2: 47181625-47181644 2267 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chr3: 114548556-114548575 2268 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chr8: 107870541-107870560 2269 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chr10: 118251348-118251367 2270 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chr13: 110648656-110648675 2271 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr1: 74982888-74982907 2272 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chr1: 74982864-74982883 2273 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chrX: 120113204-120113223 2274 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1242 chr7: 148897373-148897391 2275 TCCCCGTACGGGCCACCA Yes No No No No CU-1242 chr6: 159071498-159071516 2276 TCCCCGTACGGGCCACCA Yes No No No No CU-1243 chr1: 173342843-173342861 2277 GTCCCTTCGTGGTCGCCA No No No No No CU-1243 chr19: 55148120-55148138 2278 GTCCCTTCGTGGTCGCCA No No No No No CU-1243 chrX: 117299486-117299504 2279 GTCCCTTCGTGGTCGCCA No No No No No CU-1243 chr8: 4429174-4429192 2280 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chr11: 84485385-84485403 2281 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chr21: 26073725-26073743 2282 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chr5: 77142069-77142087 2283 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chr19: 8350798-8350816 2284 GTCCCTTCGTGGTCGCCA No No No No No CU-1243 chr12: 20827096-20827114 2285 GTCCCTTCGTGGTCGCCA No No No No No CU-1244 chr1: 159766817-159766838 2286 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 159700155-159700176 2287 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 159677946-159677967 2288 GTCAGGATGGCCGAGCGGTCT Yes Yes Yes No No CU-1244 chr1: 159685364-159685385 2289 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr16: 55891954-55891975 2290 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 159692745-159692766 2291 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 159707536-159707557 2292 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 240532967-240532988 2293 GTCAGGATGGCCGAGCGGTCT Yes No No No No CU-1246 chr14: 65014334-65014351 2294 AGGGGGGTAAAAAAAAA Yes No No No No CU-1246 chr14: 93614119-93614136 2295 AGGGGGGTAAAAAAAAA No No No No No CU-1251 chr12: 31408926-31408943 2296 CCCACCCAGGGACGCCA No No No No No CU-1251 chr17: 34161556-34161573 2297 CCCACCCAGGGACGCCA No No No No No CU-1251 chr1: 146614798-146614815 2298 CCCACCCAGGGACGCCA No No No No No CU-1251 chr19: 33728787-33728804 2299 CCCACCCAGGGACGCCA No No No No No CU-1251 chr9: 136463072-136463089 2300 CCCACCCAGGGACGCCA No No No No No CU-1254 chr4: 2032401-2032419 2301 TCCCCGGCACCTCCACCA No No No No No CU-1264 chr3: 37897506-37897524 2302 GAGGGGGACCAAAAAAAA Yes No No No No CU-1269 chr17: 21946878-21946897 2303 TACCGAGCCTGGTGATAGC No No No No No CU-1269 chr11: 102785624-102785643 2304 TACCGAGCCTGGTGATAGC Yes No No No No CU-1276 chr17: 7969840-7969862 2305 TCGATTCCCGGCCAATGCACCA No No No No No CU-1276 chr19: 39807750-39807772 2306 TCGATTCCCGGCCAATGCACCA No No No No No CU-1277 chr1: 153990335-153990358 2307 GAGCCATGATGATACCACTGAGC Yes No No No No CU-1278 chr5: 79981714-79981731 2308 TAACGGCCGCGGTACCC Yes Yes No No No CU-1278 chr3: 97818860-97818877 2309 TAACGGCCGCGGTACCC Yes Yes No No No CU-1281 chr1: 173235999-173236022 2310 GCAGCGCCAGCCTCCCGCCCTAC Yes No No No No CU-1288 chr19: 54685975-54685994 2311 CGTCCATGATGTTCCGCAA No No No No No CU-1293 chr2: 38390703-38390730 2312 AGCAGTGATGTCCTGAAAATTCTGAAG No No No No No CU-1294 chr5: 79983107-79983127 2313 AAAGGACCTGGCGGTGCTTC Yes No No No No CU-1294 chr11: 10487796-10487816 2314 AAAGGACCTGGCGGTGCTTC Yes No No No No CU-1294 chr13: 108874524-108874544 2315 AAAGGACCTGGCGGTGCTTC Yes No No No No CU-1298 chr16: 3178151-3178169 2316 ATCCCGGACGAGCCCCCA No No No No No CU-1298 chr22: 44955360-44955378 2317 ATCCCGGACGAGCCCCCA Yes No No No No CU-1298 chr11: 49720969-49720987 2318 ATCCCGGACGAGCCCCCA Yes No No No No CU-1298 chr16: 3174130-3174148 2319 ATCCCGGACGAGCCCCCA No No No No No CU-1298 chr11: 75624513-75624531 2320 ATCCCGGACGAGCCCCCA No No No No No CU-1300 chr6: 101499628-101499646 2321 TCCTCACACGGGGCACCA Yes No No No No CU-1300 chr7: 106814117-106814135 2322 TCCTCACACGGGGCACCA Yes No No No No CU-1303 chr4: 151694303-151694321 2323 ATCCCACTTCTGACACCA Yes Yes No No No CU-1303 chr1: 212585032-212585050 2324 ATCCCACTTCTGACACCA Yes No No No No CU-1303 chr3: 194813519-194813537 2325 ATCCCACTTCTGACACCA Yes No No No No CU-1303 chr2: 55018611-55018629 2326 ATCCCACTTCTGACACCA Yes Yes No No No CU-1303 chr5: 143373194-143373212 2327 ATCCCACTTCTGACACCA No Yes No No No CU-1303 chr1: 36261536-36261554 2328 ATCCCACTTCTGACACCA Yes No No No No CU-1303 chr12: 67663402-67663420 2329 ATCCCACTTCTGACACCA Yes Yes No No No CU-1303 chr4: 119344866-119344884 2330 ATCCCACTTCTGACACCA No Yes No No No CU-1303 chr12: 70175143-70175161 2331 ATCCCACTTCTGACACCA Yes Yes No No No CU-1307 chr1: 9557438-9557458 2332 ACCCCACTATGCTTAGCCCT Yes Yes No No Yes CU-1323 chr2: 232028754-232028771 2333 TGTATTGTGAGACATTC Yes No No No No CU-1324 chr4: 3167100-3167117 2334 TCTCGGTGGAACCTCCA No No No No No CU-1324 chr15: 63948450-63948467 2335 TCTCGGTGGAACCTCCA No No No No No CU-1339 chr8: 141129909-141129928 2336 ATCCCCAGCACCTCCACCA No No No No No CU-1345 chr11: 10487827-10487845 2337 AGAACACTACGAGCCACA Yes No No No No CU-1345 chr5: 79983138-79983156 2338 AGAACACTACGAGCCACA Yes No No No No CU-1345 chr13: 108874555-108874573 2339 AGAACACTACGAGCCACA Yes No No No No CU-1352 chr12: 12693348-12693366 2340 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr5: 119090314-119090332 2341 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr14: 56457992-56458010 2342 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr7: 7637279-7637297 2343 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr1: 34288353-34288371 2344 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr1: 107581087-107581105 2345 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr7: 66011743-66011761 2346 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr7: 119683539-119683557 2347 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr18: 16775205-16775223 2348 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr2: 6916389-6916407 2349 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr6: 98788231-98788249 2350 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr1: 201394394-201394412 2351 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chrX: 85448496-85448514 2352 ACCCCACTTCTGGTACCA No Yes No No No CU-1352 chr8: 140073141-140073159 2353 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr12: 8391052-8391070 2354 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chrX: 77289492-77289510 2355 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr2: 116637798-116637816 2356 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr4: 72493755-72493773 2357 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr15: 94045767-94045785 2358 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chrX: 85947724-85947742 2359 ACCCCACTTCTGGTACCA No Yes No No No CU-1352 chr20: 60081974-60081992 2360 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr18: 31113119-31113137 2361 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr11: 8446114-8446132 2362 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr6: 140796063-140796081 2363 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr22: 19662967-19662985 2364 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chrX: 116622706-116622724 2365 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr22: 43646515-43646533 2366 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr11: 3516223-3516241 2367 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr10: 123734159-123734177 2368 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr18: 120806-120824 2369 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr1: 174219317-174219335 2370 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr7: 156114211-156114229 2371 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr3: 107173811-107173829 2372 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1363 chr1: 17095207-17095225 2373 CGTTCGCGCTTTCCCCTG Yes Yes No No No CU-1363 chr1: 147460729-147460747 2374 CGTTCGCGCTTTCCCCTG No Yes No No No CU-1363 chr14: 34085816-34085834 2375 CGTTCGCGCTTTCCCCTG Yes Yes No No No CU-1363 chr14: 34095182-34095200 2376 CGTTCGCGCTTTCCCCTG Yes Yes No No No CU-1368 chr6: 27173063-27173081 2377 GACGAGGTGGCCGAGTGG Yes Yes Yes No No CU-1368 chr6: 28288793-28288811 2378 GACGAGGTGGCCGAGTGG Yes Yes No No No CU-1368 chr11: 65872166-65872184 2379 GACGAGGTGGCCGAGTGG Yes Yes Yes Yes Yes CU-1368 chr15: 38673378-38673396 2380 GACGAGGTGGCCGAGTGG Yes Yes Yes No Yes CU-1368 chr6: 27373753-27373771 2381 GACGAGGTGGCCGAGTGG Yes Yes No No No CU-1368 chr2: 228333400-228333418 2382 GACGAGGTGGCCGAGTGG Yes No No No No CU-1368 chr6: 28673159-28673177 2383 GACGAGGTGGCCGAGTGG Yes Yes No No No CU-1368 chr17: 8030908-8030926 2384 GACGAGGTGGCCGAGTGG Yes Yes No No Yes CU-1369 chr15: 94627153-94627171 2385 TCCCCGGCATCTCCACCA No No No No No CU-1370 chr1: 232795752-232795772 2386 CTGATTGCTCCTGTCTGATT No No No No No CU-1371 chr13: 108874496-108874517 2387 TCTAGAGGAGCCTGTTCTGTA Yes No No No No CU-1379 chr1: 165950616-165950638 2388 TCGGGTGCGAGAGGTCCCGGGT Yes Yes Yes Yes Yes CU-1380 chr11: 10488308-10488331 2389 ATAGGTTTGGTCCTAGCCTTTCT No No No No No CU-1381 chr1: 169836691-169836713 2390 TCGATTCCCGGTCAGGGAACCA No No No No No CU-1382 chr6: 27555431-27555459 2391 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr1: 159677282-159677310 2392 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes Yes No No CU-1382 chr17: 8066324-8066352 2393 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes No No No No CU-1382 chr1: 159699491-159699519 2394 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr1: 159692081-159692109 2395 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr6: 27579501-27579529 2396 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr1: 159684700-159684728 2397 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr12: 123990189-123990217 2398 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr12: 94953929-94953957 2399 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes Yes Yes No CU-1382 chr12: 123977887-123977915 2400 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes No No No No CU-1382 chr1: 159706872-159706900 2401 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1388 chr1: 144110633-144110661 2402 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 159698476-159698504 2403 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 159705856-159705884 2404 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 159683685-159683713 2405 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 247135069-247135097 2406 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 159691065-159691093 2407 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr6: 126143129-126143157 2408 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes No No Yes Yes CU-1396 chr1: 556086-556103 2409 TAAGTGTTTGTGGGTTA No No No No No CU-1403 chr17: 7969788-7969810 2410 GCATTGGTGGTTCAGTGGTAGA No Yes Yes No Yes CU-1403 chr16: 69370491-69370513 2411 GCATTGGTGGTTCAGTGGTAGA Yes Yes Yes No No CU-1403 chr1: 17061002-17061024 2412 GCATTGGTGGTTCAGTGGTAGA No No Yes No No CU-1403 chr3: 15524502-15524524 2413 GCATTGGTGGTTCAGTGGTAGA Yes No No No No CU-1403 chr16: 69380097-69380119 2414 GCATTGGTGGTTCAGTGGTAGA Yes Yes Yes Yes Yes CU-1403 chr1: 227740226-227740248 2415 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1403 chr1: 16745069-16745091 2416 GCATTGGTGGTTCAGTGGTAGA Yes No Yes No No CU-1403 chr1: 159760309-159760331 2417 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1403 chr2: 156965953-156965975 2418 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1403 chrX: 64154569-64154591 2419 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1403 chr6: 27978713-27978735 2420 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1440 chr5: 180533270-180533287 2421 TGGTTATCACGTTCGCC Yes Yes No No No CU-1440 chr5: 180456690-180456707 2422 TGGTTATCACGTTCGCC Yes Yes No No No CU-1440 chr6: 27281886-27281903 2423 TGGTTATCACGTTCGCC Yes Yes No No No CU-1440 chr1: 147565219-147565236 2424 TGGTTATCACGTTCGCC Yes Yes No No No CU-1440 chr5: 180461899-180461916 2425 TGGTTATCACGTTCGCC Yes Yes No No No CU-1453 chr3: 191522810-191522827 2426 CCCTGCTCGCTGCGCCA No No No No No CU-1457 chr7: 43102939-43102961 2427 TTCTCACTACTGCACTTGACTA Yes No No No No CU-1457 chr14: 67153778-67153800 2428 TTCTCACTACTGCACTTGACTA Yes No No No No CU-1457 chr1: 238571371-238571393 2429 TTCTCACTACTGCACTTGACTA No Yes No No No CU-1457 chr2: 147946177-147946199 2430 TTCTCACTACTGCACTTGACTA Yes Yes No No No CU-1470 chr16: 30675216-30675234 2431 CTCCTGGCTGGCTCGCCA Yes Yes No No No CU-1470 chr14: 43074235-43074253 2432 CTCCTGGCTGGCTCGCCA Yes No No No No CU-1477 chr17: 26124435-26124459 2433 CTCCCACTGCTTCACTTGACTAGC No No No No No CU-1477 chr17: 27331095-27331119 2434 CTCCCACTGCTTCACTTGACTAGC No No No No No CU-1477 chr10: 21810723-21810747 2435 CTCCCACTGCTTCACTTGACTAGC Yes No No No No CU-1477 chr14: 99119179-99119203 2436 CTCCCACTGCTTCACTTGACTAGC No No No No No CU-1477 chr11: 107460922-107460946 2437 CTCCCACTGCTTCACTTGACTAGC Yes No No No No CU-1477 chr4: 154407515-154407539 2438 CTCCCACTGCTTCACTTGACTAGC No Yes No No No CU-1486 chr17: 59577172-59577189 2439 CTGCTGTGATGACATTC No Yes No No No CU-1488 chr1: 4671944-4671961 2440 TCCTGCCGCGGTCGCCA No No No No No CU-1513 chr17: 59577217-59577244 2441 GCGGGTGATGCGAACTGGAGTCTGAGC Yes No No No No CU-1524 chr7: 148269562-148269586 2442 CCCCCACAACCGCGCTTGACTAGC Yes Yes No No No CU-1528 chr17: 8066916-8066935 2443 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr6: 27167511-27167530 2444 TAGGGGTATGATTCTCGCT Yes Yes Yes No No CU-1528 chr14: 20222026-20222045 2445 TAGGGGTATGATTCTCGCT Yes Yes No Yes Yes CU-1528 chr14: 20151440-20151459 2446 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr6: 26663488-26663507 2447 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr16: 3172676-3172695 2448 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr14: 20147375-20147394 2449 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr5: 180548500-180548519 2450 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr16: 3148935-3148954 2451 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr16: 3179646-3179665 2452 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr4: 18668214-18668233 2453 TAGGGGTATGATTCTCGCT Yes No No No No CU-1528 chr1: 165950597-165950616 2454 TAGGGGTATGATTCTCGCT Yes Yes Yes No Yes CU-1528 chr16: 3182001-3182020 2455 TAGGGGTATGATTCTCGCT Yes No No No No CU-1528 chr11: 75624216-75624235 2456 TAGGGGTATGATTCTCGCT Yes Yes Yes No No CU-1528 chr16: 3162061-3162080 2457 TAGGGGTATGATTCTCGCT No Yes No No No CU-1528 chr7: 128210751-128210770 2458 TAGGGGTATGATTCTCGCT Yes Yes Yes Yes Yes CU-1538 chrX: 16840335-16840361 2459 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No No No No CU-1538 chr13: 98986625-98986651 2460 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No No No No CU-1538 chr10: 128599365-128599391 2461 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No No No No CU-1538 chr7: 148311779-148311805 2462 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No No No No CU-1538 chr15: 73062744-73062770 2463 GGCTGGTCCGAGTGCAGTGGTGTTTA No No No No No CU-1538 chrX: 116932310-116932336 2464 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No No No No CU-1538 chr11: 47705094-47705120 2465 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No No No No CU-1542 chr7: 148291339-148291362 2466 GGCTGGTCCGATGGTAGTGGGTT Yes Yes Yes No No CU-1542 chr6: 33275355-33275378 2467 GGCTGGTCCGATGGTAGTGGGTT Yes Yes No No No CU-1545 chr17: 19031996-19032016 2468 CCACGAGGAAGAGAGGTAGC No No No No No CU-1550 chr6: 26438546-26438564 2469 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1550 chr6: 27853657-27853675 2470 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1550 chr6: 26421369-26421387 2471 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1550 chr6: 27408781-27408799 2472 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1550 chr6: 27668617-27668635 2473 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1557 chr17: 19033934-19033957 2474 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1557 chr17: 18907957-18907980 2475 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1557 chr17: 19032115-19032138 2476 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1557 chr17: 18956457-18956480 2477 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1557 chr17: 18906143-18906166 2478 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1570 chr17: 36922634-36922653 2479 ATCCCCAGCATCTCCACCA Yes No No No No CU-1575 chr7: 148291405-148291430 2480 CCCCCCACTGCTAAATTTGACTGGA No No No No No All human miRNA deposited in miRBase database Seq. ID Conservation ID Genomic Coordinates No. Sequence Chimp Monkey Dog Mouse Rat hsa-mir-1322 chr8: 10720294-10720313 2481 CAGCATCAGCAGCATCATC Yes No No No No hsa-mir-1323 chr19: 58867043-58867065 2482 TCAAAACTGAGGGGCATTTTCT Yes Yes No No No hsa-mir-1321 chrX: 84977492-84977510 2483 CAGGGAGGTGAATGTGAT No No No No No hsa-mir-29c* chr1: 206041870-206041892 2484 GAACACCAGGAGAAATCGGTCA Yes Yes Yes Yes Yes hsa-mir-1324 chr3: 75762663-75762687 2485 CCAGACAGAATTCTATGCACTTTC No No No No No hsa-mir-675 chr11: 1974605-1974628 2486 CACTGTGGGCCCTCTCCGCACCA No Yes No No No hsa-mir-183* chr7: 129202003-129202025 2487 TTATGGCCCTTCGGTAATTCAC Yes Yes Yes Yes Yes hsa-mir-335* chr7: 129923238-129923260 2488 TTTTTCATTATTGCTCCTGACC Yes Yes Yes Yes No hsa-mir-19a* chr13: 90801158-90801180 2489 AGTTTTGCATAGTTGCACTACA Yes No Yes Yes No hsa-mir-132* chr17: 1900008-1900030 2490 AGTAACAATCGAAAGCCACGGT No Yes Yes Yes Yes hsa-mir-182 chr7: 129197522-129197546 2491 AGTGTGAGTTCTACCATTGCCAAA Yes Yes Yes No No hsa-mir-122 chr18: 54269299-54269321 2492 TGGAGTGTGACAATGGTGTTTG Yes Yes Yes Yes Yes hsa-mir-16- chr3: 161605278-161605300 2493 CCAATATTACTGTGCTGCTTTA Yes No No No No 2* hsa-mir-124 chr8: 65454320-65454340 2494 TAAGGCACGCGGTGAATGCC Yes Yes Yes Yes Yes hsa-mir-124 chr8: 9798320-9798340 2495 GGCATTCACCGCGTGCCTTA No Yes Yes Yes Yes hsa-mir-124 chr20: 61280348-61280368 2496 TAAGGCACGCGGTGAATGCC No Yes Yes Yes Yes hsa-mir-126 chr9: 138684925-138684947 2497 TCGTACCGTGAGTAATAATGCG Yes Yes Yes Yes Yes hsa-mir-31* chr9: 21502119-21502141 2498 ATGGCAATATGTTGGCATAGCA Yes Yes Yes Yes Yes hsa-mir-128 chr2: 136139485-136139506 2499 TCACAGTGAACCGGTCTCTTT Yes Yes Yes Yes Yes hsa-mir-128 chr3: 35761022-35761043 2500 TCACAGTGAACCGGTCTCTTT Yes Yes Yes Yes Yes hsa-mir-19a chr13: 90801193-90801216 2501 TGTGCAAATCTATGCAAAACTGA Yes No Yes Yes Yes hsa-mir-524- chr19: 58906082-58906104 2502 CTACAAAGGGAAGCACTTTCTC Yes No No No No 5p hsa-mir-19b chrX: 133131378-133131401 2503 TCAGTTTTGCATGGATTTGCACA Yes Yes Yes Yes Yes hsa-mir-19b chr13: 90801499-90801522 2504 TGTGCAAATCCATGCAAAACTGA Yes Yes Yes Yes Yes hsa-mir- chr12: 53017290-53017312 2505 AAGTTCTGTTATACACTCAGGC Yes Yes Yes Yes Yes 148b* hsa-mir-1257 chr20: 59962071-59962092 2506 GGTCAGAACCCATCATTCACT No No No No No hsa-mir-1254 chr10: 70189097-70189121 2507 AGCCTGGAAGCTGGAGCCTGCAGT Yes No No No No hsa-mir-455- chr9: 116011587-116011608 2508 GCAGTCCATGGGCATATACAC Yes Yes Yes No No 3p hsa-mir-1253 chr17: 2598182-2598203 2509 TGCAGGCTGATCTTCTTCTCT Yes No No No No hsa-mir-1250 chr17: 76721659-79721680 2510 AAAGGCCACATCCAGCACCGT Yes No No No No hsa-mir-1251 chr12: 96409821-96409842 2511 ACTCTAGCTGCCAAAGGCGCT Yes Yes Yes Yes Yes hsa-mir-1258 chr2: 180433852-180433873 2512 AGTTAGGATTAGGTCGTGGAA Yes Yes No No No hsa-mir-1258 chr2: 180433816-180433837 2513 TTCCACGACCTAATCCTAACT Yes Yes No No No hsa-mir-1259 chr20: 47330268-47330289 2514 ATATATGATGACTTAGCTTTT Yes Yes No No No hsa-mir- chr8: 129130630-129130648 2515 TCAGCTGGCCCTCATTTC Yes No No No No 1207-3p hsa-mir-34c- chr11: 110889418-110889440 2516 AATCACTAACCACACGGCCAGG Yes Yes Yes No No 3p hsa-mir-489 chr7: 92951194-92951216 2517 GCTGCCGTATATGTGATGTCAC Yes Yes No No No hsa-mir-488 chr1: 175265132-175265153 2518 GACCAAGAAATAGCCTTTCAA Yes Yes Yes No No hsa-mir-556- chr1: 160578974-160578996 2519 GATGAGCTCATTGTAATATGAG Yes No No No No 5p hsa-mir-484 chr16: 15644658-15644680 2520 TCAGGCTCAGTCCCCTCCCGAT Yes Yes No Yes Yes hsa-mir-523* chr19: 58893465-58893487 2521 CTCTAGAGGGAAGCGCTTTCTG Yes No No No No hsa-mir- chr11: 121475686-121475708 2522 AGCTCCCAAGAGCCTAACCCGT Yes Yes Yes Yes Yes 125b-1* hsa-mir-7-2* chr15: 86956130-86956152 2523 CAACAAATCCCAGTCTACCTAA Yes No No No No hsa-mir-569 chr3: 172307161-172307182 2524 ACTTTCCAGGATTCATTAACT Yes Yes No No No hsa-mir-574- chr4: 38546071-38546094 2525 TGAGTGTGTGTGTGTGAGTGTGT No No Yes Yes No 5p hsa-mir- chr14: 99645762-99645783 2526 AGGGGTGCTATCTGTGATTGA Yes Yes Yes Yes Yes 342-5p hsa-mir-379 chr14: 100558160-100558181 2527 TGGTAGACTATGGAACGTAGG Yes Yes Yes Yes Yes hsa-mir-520b chr19: 58896332-58896353 2528 AAAGTGCTTCCTTTTAGAGGG Yes Yes No No No hsa-mir-520e chr19: 58870829-58870850 2529 AAAGTGCTTCCTTTTTGAGGG Yes No No No No hsa-mir- chr19: 58982745-58982765 2530 ACTCAAACTGTGGGGGCACT Yes Yes Yes No No 371-5p hsa-mir-520g chr19: 58917285-58917309 2531 ACAAAGTGCTTCCCTTTAGAGTGT Yes No No No No hsa-mir-520f chr19: 58877278-58877300 2532 AAGTGCTTCCTTTTAGAGGGTT Yes No No No No hsa-mir-520h chr19: 58937631-58937653 2533 ACAAAGTGCTTCCCTTTAGAGT Yes No No No No hsa-mir-219- chr9: 130194775-130194796 2534 AGAATTGCGTTTGGACAATCA Yes Yes Yes Yes Yes 5p hsa-mir-219- chr6: 33283609-33283630 2535 TGATTGTCCAAACGCAATTCT Yes Yes Yes Yes Yes 5p hsa-mir- chr16: 68524506-68524528 2536 CAGTGGTTTTACCCTATGGTAG Yes Yes Yes Yes Yes 140-5p hsa-mir-423- chr17: 25468238-25468261 2537 TGAGGGGCAGAGAGCGAGACTT Yes Yes Yes Yes Yes 5p hsa-mir-30b* chr8: 135881956-135881978 2538 GAAGTAAACATCCACCTCCCAG Yes Yes Yes No No hsa-mir-195 chr17: 6861709-6861730 2539 GCCAATATTTCTGTGCTGCTA Yes Yes Yes Yes Yes hsa-mir-194 chr11: 64415451-64415473 2540 TCCACATGGAGTTGCTGTTACA Yes Yes Yes Yes Yes hsa-mir-194 chr1: 218358170-218358192 2541 TCCACATGGAGTTGCTGTTACA Yes Yes Yes Yes Yes hsa-mir-197 chr1: 109943084-109943106 2542 TTCACCACCTTCTCCACCCAGC Yes Yes Yes No No hsa-mir-191 chr3: 49033108-49033131 2543 CAGCTGCTTTTGGGATTCCGTTG Yes Yes Yes Yes Yes hsa-mir-190 chr15: 60903222-60903244 2544 TGATATGTTTGATATATTAGGT Yes Yes Yes Yes Yes hsa-mir-192 chr11: 64415250-64415271 2545 GGCTGTCAATTCATAGGTCAG Yes Yes Yes Yes Yes hsa-mir-449a chr5: 54502170-54502192 2546 ACCAGCTAACAATACACTGCCA No Yes Yes Yes Yes hsa-mir-339- chr7: 1029116-1029139 2547 CGGCTCTGTCGTCGAGGCGCTCA No Yes No No No 3p hsa-mir-508- chrX: 146126189-146126212 2548 CATGAGTGACGCCCTCTGGAGTA No No No No No 5p hsa-mir-1284 chr3: 71673879-71673901 2549 GAAAAGCCAGGGTCTGTATAGA Yes No No No No hsa-mir-362- chrX: 49660315-49660339 2550 AATCCTTGGAACCTAGGTGTGAGT Yes Yes Yes No No 5p hsa-mir- chr19: 56888370-56888392 2551 ACAGGTGAGGTTCTTGGGAGCC Yes Yes Yes Yes Yes 125a-3p hsa-mir-34a* chr1: 9134338-9134360 2552 AGGGCAGTATACTTGCTGATTG Yes Yes Yes Yes Yes hsa-mir-373 chr19: 58983813-58983836 2553 GAAGTGCTTCGATTTTGGGGTGT No Yes No No No hsa-mir-502- chrX: 49665996-49666018 2554 AATGCACCTGGGCAAGGATTCA Yes Yes Yes No No 3p hsa-mir-200b chr1: 1092402-1092424 2555 TAATACTGCCTGGTAATGATGA No No Yes Yes Yes hsa-mir-200c chr12: 6943165-6943188 2556 TAATACTGCCGGGTAATGATGGA Yes Yes Yes Yes Yes hsa-mir-200a chr1: 1093158-1093180 2557 TAACACTGTCTGGTAACGATGT Yes Yes Yes Yes Yes hsa-mir-410 chr14: 100602050-100602071 2558 AATATAACACAGATGGCCTGT Yes Yes Yes Yes Yes hsa-mir-411 chr14: 100559429-100559450 2559 TAGTAGACCGTATAGCGTACG Yes Yes Yes Yes Yes hsa-mir-412 chr14: 100601589-100601612 2560 ACTTCACCTGGTCCACTAGCCGT Yes Yes No Yes Yes hsa-mir-555 chr1: 153582779-153582800 2561 ATCAGAGGTTCAGCTTACCCT Yes No No No No hsa-mir-554 chr1: 149784910-149784931 2562 GCTAGTCCTGACTCAGCCAGT Yes Yes No No No hsa-mir-493* chr14: 100405164-100405186 2563 TTGTACATGGTAGGCTTTCATT No Yes Yes Yes Yes hsa-mir-550 chr7: 30295955-30295978 2564 AGTGCCTGAGGGAGTAAGAGCCC Yes Yes No No No hsa-mir-550 chr7: 32739138-32739161 2565 AGTGCCTGAGGGAGTAAGAGCCC Yes Yes No No No hsa-mir-553 chr1: 100519399-100519420 2566 AAAACGGTGAGATTTTGTTTT Yes No No No No hsa-mir- chr17: 26911147-26911169 2567 TGGGTCTTTGCGGGCGAGATGA Yes Yes Yes No No 193a-5p hsa-mir-876- chr9: 28853633-28853655 2568 TGAATTACTTTGTAAACCACCA Yes Yes Yes No No 3p hsa-mir-139- chr11: 72003757-72003779 2569 ACTCCAACAGGGCCGCGTCTCC Yes Yes No Yes Yes 3p hsa-mir-30a chr6: 72170018-72170040 2570 CTTCCAGTCGAGGATGTTTACA Yes Yes Yes Yes Yes hsa-mir-30b chr8: 135881994-135882016 2571 AGCTGAGTGTAGGATGTTTACA Yes Yes Yes Yes Yes hsa-mir-30c chr1: 40995558-40995581 2572 TGTAAACATCCTACACTCTCAGC Yes Yes Yes Yes Yes hsa-mir-30c chr6: 72143426-72143449 2573 GCTGAGAGTGTAGGATGTTTACA Yes Yes Yes Yes Yes hsa-mir-30d chr8: 135886343-135886365 2574 CTTCCAGTCGGGGATGTTTACA Yes Yes Yes Yes Yes hsa-mir-30e chr1: 40992629-40992651 2575 TGTAAACATCCTTGACTGGAAG Yes Yes Yes Yes Yes hsa-mir- chrX: 73355116-73355138 2576 AATGATAATACAACCTGCTAAG Yes Yes No Yes No 374b* hsa-mir- chr6: 119431925-119431947 2577 ACAAAAGCAACTGAGGTTCTTG Yes No No No No 548b-3p hsa-mir-515- chr19: 58874081-58874105 2578 TTCTCCAAAAGAAAGCACTTTCTG Yes No No No No 5p hsa-mir-515- chr19: 58880087-58880111 2579 TTCTCCAAAAGAAAGCACTTTCTG Yes No No No No 5p hsa-mir-429 chr1: 1094297-1094319 2580 TAATACTGTCTGGTAAAACCGT No Yes No No No hsa-mir-486- chr8: 41637118-41637140 2581 TCCTGTACTGAGCTGCCCCGAG Yes Yes Yes Yes No 5p hsa-mir-486- chr8: 41637158-41637180 2582 CTCGGGGCAGCTCAGTACAGGA Yes Yes Yes Yes No 5p hsa-mir-1206 chr8: 129090328-129090349 2583 TGTTCATGTAGATGTTTAAGC Yes No No No No hsa-mir-99a chr21: 16833291-16833313 2584 AACCCGTAGATCCGATCTTGTG Yes Yes Yes Yes Yes hsa-mir-188- chrX: 49654901-49654922 2585 CTCCCACATGCAGGGTTTGCA Yes Yes Yes Yes Yes 3p hsa-mir-99b chr19: 56887682-56887704 2586 CACCCGTAGAACCGACCTTGCG Yes Yes Yes Yes Yes hsa-mir-300 chr14: 100577503-100577525 2587 TATACAAGGGCAGACTCTCTCT Yes No No No No hsa-mir-193b chr16: 14305374-14305396 2588 AACTGGCCCTCAAAGTCCCGCT Yes Yes No No No hsa-mir-1203 chr17: 43588846-43588867 2589 GAGCTGCATCCTGGCTCCGGG Yes No No No No hsa-mir-30c- chr1: 40995597-40995619 2590 CTGGGAGAGGGTTGTTTACTCC Yes Yes Yes Yes Yes 1* hsa-mir-19b- chrX: 133131422-133131444 2591 TGAAATGCAAACCTGCAAAACT Yes Yes Yes No No 2* hsa-mir-1286 chr22: 18616667-18616688 2592 AGGGCTCATCTTGGTCCTGCA Yes No No No No hsa-let-7g* chr3: 52277335-52277356 2593 GCAAGGCAGTGGCCTGTACAG Yes Yes Yes Yes No hsa-mir-361- chrX: 85045301-85045324 2594 AAATCAGAATCACACCTGGGGGA Yes Yes Yes Yes No 3p hsa-mir- chr19: 58926084-58926104 2595 CTGCAAAGGGAAGCCCTTTC Yes No No No No 518a-5p hsa-mir- chr19: 58934413-58934433 2596 CTGCAAAGGGAAGCCCTTTC Yes No No No No 518a-5p hsa-mir-604 chr10: 29873953-29873972 2597 GTCCTGAATTCCGCAGCCT No No No No No hsa-mir-485- chr14: 100591516-100591538 2598 AGAGGCTGGCCGTGATGAATTC Yes Yes Yes Yes Yes 5p hsa-mir-452* chrX: 150878761-150878783 2599 CACTTACTTCTTTGCAGATGAG Yes Yes Yes No No hsa-mir- chrX: 133501926-133501948 2600 TATTCAGGAACATATTGCAAAA Yes Yes Yes No No 450b-5p hsa-mir-505 chrX: 138833984-138834006 2601 AGGAAACCAGCAAGTGTTGACG Yes Yes Yes No Yes hsa-mir-299- chr14: 100559889-100559911 2602 TGGTTTACCGTCCCACATACAT Yes Yes Yes Yes Yes 5p hsa-mir- chr9: 126494617-126494639 2603 ACCACTGACCGTTGACTGTACC Yes Yes No No No 181a-2* hsa-mir-29b- chr1: 206042459-206042481 2604 CTAAGCCACCATGTGAAACCAG Yes Yes Yes Yes Yes 2* hsa-mir-323- chr14: 100561871-100561892 2605 CACATTACACGGTCGACCTCT Yes Yes Yes Yes Yes 3p hsa-mir-1256 chr1: 21187456-21187478 2606 AGCTAGTGAGAAGTCAATGCCT Yes Yes No No No hsa-mir-144* chr17: 24212726-24212748 2607 CTTACAGTATATGATGATATCC Yes Yes Yes Yes Yes hsa-mir-1280 chr3: 129563701-129563718 2608 TCCCACCGCTGCCACCC Yes No No No No hsa-mir-379* chr14: 100558198-100558220 2609 TATGTAACATGGTCCACTAACT Yes Yes Yes Yes Yes hsa-mir-1252 chr12: 78337171-78337193 2610 AGAAGGAAATTGAATTCATTTA No No No No No hsa-mir-324- chr17: 7067384-7067407 2611 ACACCAATGCCCTAGGGGATGCG Yes Yes Yes Yes Yes 5p hsa-mir- chr19: 58920562-58920580 2612 TGCTTCCTTTCAGAGGGT Yes No No No No 516b* hsa-mir- chr19: 58931970-58931988 2613 TGCTTCCTTTCAGAGGGT Yes Yes No No No 516b* hsa-mir-18b chrX: 133131779-133131802 2614 CTAACTGCACTAGATGCACCTTA Yes Yes Yes No No hsa-mir-17 chr13: 90800872-90800895 2615 CAAAGTGCTTACAGTGCAGGTAG Yes No Yes Yes Yes hsa-mir-16 chr3: 161605235-161605257 2616 TAGCAGCACGTAAATATTGGCG Yes Yes Yes Yes Yes hsa-mir-16 chr13: 49521163-49521185 2617 CGCCAATATTTACGTGCTGCTA Yes Yes Yes Yes No hsa-mir-26b* chr2: 218975658-218975680 2618 CCTGTTCTCCATTACTTGGCTC Yes Yes Yes Yes Yes hsa-mir-618 chr12: 79853705-79853728 2619 ACTCAGAAGGACAAGTAGAGTTT Yes Yes No No No hsa-mir-331- chr12: 94226386-94226407 2620 GCCCCTGGGCCTATCCTAGAA Yes Yes Yes Yes Yes 3p hsa-mir-605 chr10: 52729353-52729376 2621 TAAATCCCATGGTGCCTTCTCCT Yes No No No No hsa-mir-376a chr14: 100576914-100576935 2622 ATCATAGAGGAAAATCCACGT Yes Yes Yes No No hsa-mir-376a chr14: 100576207-100576228 2623 ATCATAGAGGAAAATCCACGT Yes Yes Yes No No hsa-mir-376b chr14: 100576586-100576608 2624 ATCATAGAGGAAAATCCATGTT Yes Yes Yes No No hsa-mir-376c chr14: 100575821-100575842 2625 AACATAGAGGAAATTCCACGT Yes Yes Yes No No hsa-mir-601 chr9: 125204666-125204688 2626 CTCCTCCAACAATCCTAGACCA Yes Yes No No No hsa-mir-600 chr9: 124913660-124913683 2627 GAGCAAGGCTCTTGTCTGTAAGT Yes No No No No hsa-mir-603 chr10: 24604679-24604701 2628 CACACACTGCAATTACTTTTGC No No No No No hsa-mir-602 chr9: 139852706-139852729 2629 GACACGGGCGACAGCTGCGGCCC No No No No No hsa-mir-609 chr10: 105968596-105968616 2630 AGAGATGAGAGAAACACCCT Yes No No No No hsa-mir-608 chr10: 102724746-102724771 2631 AGGGGTGGTGTTGGGACAGCTCCGT No No No No No hsa-mir- chr3: 169752356-169752378 2632 GAAATCAAGCGTGGGTGAGACC Yes Yes No No No 551b* hsa-mir-544 chr14: 100584801-100584823 2633 ATTCTGCATTTTTAGCAAGTTC Yes Yes Yes No No hsa-mir-664* chr1: 218440550-218440574 2634 ATCCAATCATTTTCCCTAGCCAGT Yes Yes No No No hsa-mir-409- chr14: 100601403-100601426 2635 AGGTTACCCGAGCAACTTTGCAT Yes Yes Yes Yes Yes 5p hsa-mir-136* chr14: 100420839-100420861 2636 CATCATCGTCTCAAATGAGTCT Yes Yes Yes Yes Yes hsa-mir-1282 chr15: 41873221-41873241 2637 AAGCAGAAAAAGGCAAACGA Yes Yes Yes Yes Yes hsa-mir- chr19: 58881549-58881571 2638 CTCTAGAGGGAAGCGCTTTCTG Yes No No No No 519c-5p hsa-mir-1208 chr8: 129231554-129231574 2639 TCACTGTTCAGACAGGCGGA Yes Yes No No No hsa-mir-1205 chr8: 129042067-129042087 2640 TCTGCAGGGTTTGCTTTGAG Yes No No No No hsa-mir-663b chr2: 132731012-132731034 2641 CCTCAGGCACGGCCGGGCCACC Yes No No No No hsa-mir-1201 chr14: 19864455-19864479 2642 TCAGAGCATGTGTTTAATCAGGCT Yes Yes No No No hsa-mir-1200 chr7: 36925532-36925554 2643 GAGGCTCAGAATGGCTCAGGAG No No No No No hsa-mir-338- chr17: 76714317-76714339 2644 CACTCAGCACCAGGATATTGTT Yes Yes Yes Yes Yes 5p hsa-mir-1202 chr6: 156309634-156309655 2645 GTGCCAGCTGCAGTGGGGGAG Yes Yes No No No hsa-mir-501- chrX: 49661082-49661104 2646 AATCCTTTGTCCCTGGGTGAGA Yes Yes No No No 5p hsa-mir- chr19: 58890290-58890312 2647 CTCTAGAGGGAAGCGCTTTCTG Yes Yes No No No 519b-5p hsa-mir-101* chr1: 65296747-65296769 2648 AGCATCAGCACTGTGATAACTG Yes Yes Yes Yes Yes hsa-mir-511 chr10: 17927127-17927148 2649 GTGTCTTTTGCTCTGCAGTCA Yes No No No No hsa-mir-511 chr10: 18174056-18174077 2650 GTGTCTTTTGCTCTGCAGTCA Yes No No No No hsa-mir-510 chrX: 146161587-146161609 2651 GTGATTGCCACTCTCCTGAGTA No No No No No hsa-let-7a* chr9: 95978115-95978136 2652 CTATACAATCTACTGTCTTTC Yes Yes Yes Yes Yes hsa-let-7a* chr22: 44887343-44887364 2653 CTATACAATCTACTGTCTTTC Yes Yes Yes Yes Yes hsa-mir-514 chrX: 146173864-146173885 2654 TCTACTCACAGAAGTGTCAAT Yes Yes No No No hsa-mir-514 chrX: 146171166-146171187 2655 TCTACTCACAGAAGTGTCAAT Yes Yes No No No hsa-mir-514 chrX: 146168475-146168496 2656 TCTACTCACAGAAGTGTCAAT Yes No No No No hsa-mir-524- chr19: 58906119-58906140 2657 GAAGGCGCTTCCCTTTGGAGT Yes No No No No 3p hsa-mir-491- chr9: 20706118-20706140 2658 AGTGGGGAACCCTTCCATGAGG Yes Yes Yes Yes No 5p hsa-mir-18b* chrX: 133131737-133131759 2659 GCCAGAAGGGGCATTTAGGGCA No Yes No No No hsa-mir-411* chr14: 100559464-100559486 2660 TATGTAACACGGTCCACTAACC Yes Yes Yes Yes Yes hsa-mir- chr8: 124429469-124429491 2661 GCAAAAGAAACTGTGGTTTTTG No No No No No 548d-3p hsa-mir- chr17: 62898081-62898103 2662 GCAAAAGAAACTGTGGTTTTTG No No No No No 548d-3p hsa-mir-490- chr7: 136238528-136238550 2663 CAACCTGGAGGACTCCATGCTG Yes Yes Yes Yes Yes 3p hsa-mir-576- chr4: 110629356-110629378 2664 AAGATGTGGAAAAATTGGAATC Yes Yes No No No 3p hsa-mir-34a chr1: 9134380-9134402 2665 ACAACCAGCTAAGACACTGCCA Yes Yes Yes Yes Yes hsa-mir-34b chr11: 110888921-110888943 2666 CAATCACTAACTCCACTGCCAT Yes Yes Yes Yes Yes hsa-mir-654- chr14: 100576323-100576345 2667 TGGTGGGCCGCAGAACATGTGC Yes Yes No No No 5p hsa-mir-216a chr2: 56069658-56069680 2668 TCACAGTTGCCAGCTGAGATTA No Yes Yes Yes Yes hsa-mir-216b chr2: 56081402-56081424 2669 TCACATTTGCCTGCAGAGATTT Yes Yes Yes Yes Yes hsa-mir-590- chr7: 73243518-73243539 2670 TAATTTTATGTATAAGCTAGT Yes No Yes No No 3p hsa-mir-939 chr8: 145590215-145590239 2671 CACCCCCAGAGCCTCAGCTCCCCA Yes Yes No No No hsa-mir-938 chr10: 29931245-29931267 2672 ACTGGGTTCACCTTTAAGGGCA Yes No No No No hsa-mir-34c- chr11: 110889385-110889408 2673 AGGCAGTGTAGTTAGCTGATTGC Yes Yes Yes Yes Yes 5p hsa-mir-15a* chr13: 49521266-49521288 2674 TGAGGCAGCACAATATGGCCTG Yes Yes Yes No No hsa-mir-933 chr2: 175740615-175740637 2675 GGGAGAGGTCTCCCTGCGCACA Yes Yes No No No hsa-mir-499- chr20: 33041908-33041930 2676 AACATCACAGCAAGTCTGTGCT Yes Yes Yes Yes Yes 3p hsa-mir-937 chr8: 144967128-144967150 2677 GGCAGAGAGTCAGAGCGCGGAT Yes No No No No hsa-mir-936 chr10: 105797898-105797920 2678 CTGCGATTCCTCCCTCTACTGT Yes No No No No hsa-mir-935 chr19: 59177427-59177450 2679 CCAGTTACCGCTTCCGCTACCGC Yes No No No Yes hsa-mir-654- chr14: 100576358-100576380 2680 TATGTCTGCTGACCATCACCTT Yes Yes No Yes No 3p hsa-mir-93* chr7: 99529335-99529357 2681 CGGGAAGTGCTAGCTCAGCAGT Yes Yes Yes Yes Yes hsa-mir-516b chr19: 58920522-58920544 2682 ATCTGGAGGTAAGAAGCACTTT Yes No No No No hsa-mir-516b chr19: 58931925-58931947 2683 ATCTGGAGGTAAGAAGCACTTT Yes Yes No No No hsa-mir-551a chr1: 3467133-3467154 2684 TGGAAACCAAGAGTGGGTCGC Yes Yes Yes No No hsa-mir-551b chr3: 169752395-169752416 2685 GCGACCCATACTTGGTTTCAG Yes Yes Yes Yes Yes hsa-mir-345 chr14: 99843965-99843987 2686 GCTGACTCCTAGTCCAGGGCTC Yes No No No No hsa-mir-346 chr10: 88014483-88014506 2687 AGAGGCAGGCATGCGGGCAGACA Yes Yes Yes No No hsa-mir-340 chr5: 179374966-179374988 2688 AATCAGTCTCATTGCTTTATAA Yes Yes Yes Yes No hsa-mir-106a chrX: 133131939-133131962 2689 CTACCTGCACTGTAAGCACTTTT Yes Yes Yes No No hsa-mir-23b* chr9: 96887329-96887351 2690 TGGGTTCCTGGCATGCTGATTT Yes Yes Yes Yes Yes hsa-mir-106b chr7: 99529601-99529622 2691 ATCTGCACTGTCAGCACTTTA Yes Yes Yes Yes Yes hsa-mir-194* chr11: 64415415-64415437 2692 CAGATAACAGCAGCCCCACTGG Yes Yes No Yes Yes hsa-mir- chr19: 58947476-58947498 2693 CTCTAGAGGGAAGCGCTTTCTG Yes No No No No 519a* hsa-mir-519e chr19: 58875056-58875078 2694 AAGTGCCTCCTTTTAGAGTGTT Yes No No No No hsa-mir-519d chr19: 58908465-58908487 2695 CAAAGTGCCTCCCTTTAGAGTG Yes No No No No hsa-mir-769- chr19: 51214097-51214120 2696 CTGGGATCTCCGGGGTCTTGGTT No No No No No 3p hsa-mir-519a chr19: 58947514-58947536 2697 AAAGTGCATCCTTTTAGAGTGT Yes No No No No hsa-mir-519a chr19: 58957462-58957484 2698 AAAGTGCATCCTTTTAGAGTGT Yes Yes No No No hsa-mir-943 chr4: 1957927-1957948 2699 CTGGAGGACGGCAACAGTCAG Yes No No No No hsa-mir-940 chr16: 2261807-2261828 2700 AAGGCAGGGCCCCCGCTCCCC Yes Yes Yes No No hsa-mir-941 chr20: 62021710-62021733 2701 CACCCGGCTGTGTGCACATGTGC No No No No No hsa-mir-941 chr20: 62021598-62021621 2702 CACCCGGCTGTGTGCACATGTGC No No No No No hsa-mir-941 chr20: 62021291-62021314 2703 CACCCGGCTGTGTGCACATGTGC Yes No No No No hsa-mir-423- chr17: 25468274-25468297 2704 AGCTCGGTCTGAGGCCCCTCAGT Yes Yes Yes Yes Yes 3p hsa-mir-203 chr14: 103653558-103653580 2705 GTGAAATGTTTAGGACCACTAG Yes Yes Yes Yes Yes hsa-mir-202 chr10: 134911032-134911052 2706 TTCCCATGCCCTATACCTCT Yes No No No No hsa-mir-205 chr1: 207672133-207672155 2707 TCCTTCATTCCACCGGAGTCTG Yes Yes Yes Yes Yes hsa-mir-204 chr9: 72614766-72614788 2708 AGGCATAGGATGACAAAGGGAA Yes Yes Yes Yes Yes hsa-mir-526a chr19: 58921993-58922015 2709 CTCTAGAGGGAAGCACTTTCTG Yes No No No No hsa-mir-526a chr19: 58901331-58901353 2710 CTCTAGAGGGAAGCACTTTCTG Yes No No No No hsa-mir-28- chr3: 189889315-189889337 2711 CACTAGATTGTGAGCTCCTGGA Yes Yes Yes No Yes 3p hsa-mir- chr4: 113788828-113788851 2712 AGCAAGTACATCCACGTTTAAGT Yes Yes Yes No No 302a* hsa-mir- chr12: 63302615-63302637 2713 CAAAAATCTCAATTACTTTTGC Yes No No No No 548c-3p hsa-mir-424* chrX: 133508339-133508360 2714 ATAGCAGCGCCTCACGTTTTG Yes Yes Yes No No hsa-mir-886- chr5: 135444163-135444186 2715 CCGCTTGAGCTAACTCCGACCCG Yes Yes No No No 5p hsa-mir-877* chr6: 30660152-30660173 2716 TCCTCTTCTCCCTCCTCCCAG Yes Yes No Yes Yes hsa-mir-29b chr7: 130212765-130212788 2717 AACACTGATTTCAAATGGTGCTA Yes Yes Yes Yes Yes hsa-mir-29b chr1: 206042417-206042440 2718 AACACTGATTTCAAATGGTGCTA Yes Yes Yes Yes Yes hsa-mir-29c chr1: 206041832-206041854 2719 TAACCGATTTCAAATGGTGCTA Yes Yes Yes Yes Yes hsa-mir-29a chr7: 130212046-130212068 2720 TAACCGATTTCAGATGGTGCTA No Yes Yes Yes Yes hsa-mir-20a chr13: 90801326-90801349 2721 TAAAGTGCTTATAGTGCAGGTAG Yes No Yes Yes Yes hsa-mir-640 chr19: 19406931-19406952 2722 ATGATCCAGGAACCTGCCTCT Yes Yes No No No hsa-mir-129- chr11: 43559533-43559554 2723 CTTTTTGCGGTCTGGGCTTGC Yes Yes Yes Yes Yes 5p hsa-mir-129- chr7: 127635164-127635185 2724 CTTTTTGCGGTCTGGGCTTGC Yes Yes Yes Yes Yes 5p hsa-mir-20b chrX: 133131545-133131568 2725 CTACCTGCACTATGAGCACTTTG Yes Yes No Yes Yes hsa-mir-645 chr20: 48635789-48635808 2726 TCTAGGCTGGTACTGCTGA Yes No No No No hsa-mir-644 chr20: 32517850-32517869 2727 AGTGTGGCTTTCTTAGAGC Yes No No No No hsa-mir-647 chr20: 62044487-62044508 2728 GAAGGAAGTGAGTGCAGCCAC No No No No No hsa-mir-646 chr20: 58316986-58317005 2729 AAGCAGCTGCCTCTGAGGC Yes No No No No hsa-mir-649 chr22: 19718479-19718501 2730 GACTCTTGAACAACACAGGTTT Yes Yes No No No hsa-mir-648 chr22: 16843693-16843712 2731 ACCAGTGCCCTGCACACTT No No No No No hsa-mir-760 chr1: 94085023-94085043 2732 CGGCTCTGGGTCTGTGGGGA Yes Yes No Yes Yes hsa-mir-766 chrX: 118664753-118664775 2733 GCTGAGGCTGTGGGGCTGGAGT Yes No No No No hsa-mir-765 chr1: 155172571-155172592 2734 CATCACCTTCCTTCTCCTCCA Yes No No No No hsa-mir-628- chr15: 53452443-53452464 2735 TCGACTGCCACTCTTACTAGA Yes Yes Yes No No 3p hsa-mir-337- chr14: 100410604-100410625 2736 GAACGGCTTCATACAGGAGTT Yes Yes No No No 5p hsa-mir-373* chr19: 58983775-58983797 2737 ACTCAAAATGGGGGCGCTTTCC Yes No No No No hsa-mir-369- chr14: 100601695-100601717 2738 AGATCGACCGTGTTATATTCGC Yes Yes No Yes Yes 5p hsa-mir-1285 chr7: 91671276-91671298 2739 AGGTCTCACTTTGTTGCCCAGA Yes No No No No hsa-mir-1285 chr2: 70333568-70333590 2740 AGGTCTCACTTTGTTGCCCAGA No No No No No hsa-mir-222* chrX: 45491422-45491444 2741 AGGATCTACACTGGCTACTGAG No Yes Yes Yes Yes hsa-mir-298 chr20: 56826729-56826753 2742 TGGGAGAACCTCCCTGCTTCTGCT Yes No No No No hsa-mir-206 chr6: 52117157-52117179 2743 TGGAATGTAAGGAAGTGTGTGG Yes Yes Yes Yes Yes hsa-mir-297 chr4: 112001228-112001249 2744 CATGCACATGCACACATACAT Yes No No No No hsa-mir-589* chr7: 5501990-5502014 2745 TCTGGGAACCGGCATTTGTTCTGA No No No No No hsa-mir-124* chr20: 61280310-61280332 2746 CGTGTTCACAGCGGACCTTGAT No Yes Yes Yes Yes hsa-mir-124* chr8: 9798357-9798379 2747 ATCAAGGTCCGCTGTGAACACG No Yes Yes Yes Yes hsa-mir-124* chr8: 65454283-65454305 2748 CGTGTTCACAGCGGACCTTGAT Yes Yes Yes Yes Yes hsa-mir-185* chr22: 18400710-18400732 2749 AGGGGCTGGCTTTCCTCTGGTC Yes Yes Yes Yes Yes hsa-mir-486- chr8: 41637160-41637181 2750 CGGGGCAGCTCAGTACAGGAT Yes Yes Yes Yes No 3p hsa-mir-486- chr8: 41637117-41637138 2751 ATCCTGTACTGAGCTGCCCCG Yes Yes Yes Yes No 3p hsa-mir-1243 chr4: 114247471-114247493 2752 AACTGGATCAATTATAGGAGTG Yes Yes No No No hsa-mir-616* chr12: 56199272-56199294 2753 AAGTCACTGAAGGGTTTTGAGT No No No No No hsa-mir-1245 chr2: 189551106-189551127 2754 AAGTGATCTAAAGGCCTACAT Yes No No No No hsa-mir-1244 chr12: 12156206-12156232 2755 AAGTAGTTGGTTTGTATGAGATGGTT Yes Yes Yes Yes No hsa-mir-1244 chr12: 9283334-9283360 2756 AACCATCTCATACAAACCAACTACTT Yes Yes Yes Yes No hsa-mir-1244 chr2: 232286321-232286347 2757 AAGTAGTTGGTTTGTATGAGATGGTT Yes Yes Yes Yes Yes hsa-mir-1244 chr5: 118338233-118338259 2758 AAGTAGTTGGTTTGTATGAGATGGTT Yes Yes Yes Yes No hsa-mir-1247 chr14: 101096451-101096473 2759 TCCGGGGACGAACGGGACGGGT Yes Yes No Yes Yes hsa-mir-1246 chr2: 177173997-177174016 2760 CCTGCTCCAAAAATCCATT Yes Yes No No No hsa-mir-1249 chr22: 43975502-43975524 2761 TGAAGAAGGGGGGGAAGGGCGT Yes Yes Yes Yes No hsa-mir-491- chr9: 20706152-20706174 2762 CTTATGCAAGATTCCCTTCTAC Yes Yes Yes Yes No 3p hsa-mir- chr7: 25956104-25956126 2763 AGTCGGAGTGTCTCAGAACTTT Yes Yes Yes Yes No 148a* hsa-mir-92b* chr1: 153431610-153431632 2764 AGGGACGGGACGCGGTGCAGTG No Yes Yes No Yes hsa-mir-548o chr7: 101833199-101833221 2765 GCAAAAGTAACTGCAGTTTTGG Yes Yes No No No hsa-mir-891b chrX: 144890309-144860331 2766 TCAATGACTCAGGTAAGTTGCA Yes Yes No No No hsa-mir- chrX: 94204846-94204867 2767 CAAAAACCACAAATACCTTTG No No No No No 548m hsa-mir-548l chr11: 93839358-93839380 2768 GACAAAACCCGCAAATACTTTT Yes Yes No No No hsa-mir-548k chr11: 69807739-69807761 2769 AAAAGTACTTGCGGATTTTGCT Yes No No No No hsa-mir-1283 chr19: 58883559-58883581 2770 TCTACAAAGGAAAGCGCTTTCT Yes No No No No hsa-mir-1283 chr19: 58953310-58953332 2771 TCTACAAAGGAAAGCGCTTTCT No No No No No hsa-mir-548i chrX: 83367460-83367482 2772 GGCAAAATCCGCAATTACTTTT No No No No No hsa-mir-548i chr3: 126992025-126992047 2773 GGCAAAATCCGCAATTACTTTT Yes No No No No hsa-mir-548i chr8: 7983961-7983983 2774 GGCAAAATCCGCAATTACTTTT Yes No No No No hsa-mir-548i chr4: 9166975-9166997 2775 GGCAAAATCCGCAATTACTTTT Yes No No No No hsa-mir-548h chr17: 13387638-13387660 2776 GACAAAAACCGCGATTACTTTT No No No No No hsa-mir-548h chr8: 26962359-26962381 2777 GACAAAAACCGCGATTACTTTT No No No No No hsa-mir-548h chr14: 63631554-63631576 2778 GACAAAAACCGCGATTACTTTT Yes No No No No hsa-mir-548h chr16: 11307848-11307870 2779 GACAAAAACCGCGATTACTTTT No No No No No hsa-mir-548g chr4: 148485244-148485266 2780 GTACAAAAGTAATTACAGTTTT No No No No No hsa-mir-548f chr5: 109877443-109877462 2781 AAAAGTAATTACAGTTTTT Yes No No No No hsa-mir-548f chr7: 146706065-146706084 2782 AAAAGTAATTACAGTTTTT No No No No No hsa-mir-548f chrX: 32569527-32569546 2783 AAAAGTAATTACAGTTTTT Yes No No No No hsa-mir-548f chr2: 212999252-212999271 2784 AAAAGTAATTACAGTTTTT No No No No No hsa-mir-548f chr10: 56037654-56037673 2785 AAAAGTAATTACAGTTTTT No No No No No hsa-mir-496 chr14: 100596717-100596739 2786 TGAGTATTACATGGCCAATCTC Yes Yes Yes Yes Yes hsa-mir-497 chr17: 6862021-6862042 2787 ACAAACCACAGTGTGCTGCTG Yes Yes Yes Yes Yes hsa-mir-190b chr1: 152432812-152432833 2788 AACCCAATATCAAACATATCA Yes Yes Yes Yes No hsa-mir-492 chr12: 93752333-93752356 2789 AGGACCTGCGGGACAAGATTCTT No No No No No hsa-mir-493 chr14: 100405205-100405227 2790 TGAAGGTCTACTGTGTGCCAGG No Yes Yes No Yes hsa-mir- chr9: 130046882-130046905 2791 GAACAGATAGTCTAAACACTGGG Yes No Yes No No 199b-5p hsa-mir-891a chrX: 144917050-144917072 2792 TCAGTGGCTCAGGTTCGTTGCA No No No No No hsa-mir-500* chrX: 49659829-49659851 2793 ATGCACCTGGGCAAGGATTCTG Yes Yes Yes No No hsa-mir-105* chrX: 151311355-151311377 2794 TAGCACATGCTCAAACATCCGT Yes Yes Yes No Yes hsa-mir-105* chrX: 151313548-151313570 2795 TAGCACATGCTCAAACATCCGT Yes Yes No No Yes hsa-mir-513c chrX: 146078962-146078984 2796 ATAAACGACACCTCCTTGAGAA No No No No No hsa-mir-513b chrX: 146088302-146088324 2797 ATAAATGACACCTCCTTGTGAA No Yes No No No hsa-mir-18a* chr13: 90801051-90801074 2798 ACTGCCCTAAGTGCTCCTTCTGG Yes No Yes Yes Yes hsa-mir-548p chr5: 100180100-100180122 2799 AAAGTAACTGCAGTTTTTGCTA Yes No No No No hsa-mir-24-1* chr9: 96888129-96888151 2800 TGCCTACTGAGCTGATATCAGT Yes Yes Yes Yes Yes hsa-mir-582- chr5: 59035248-59035271 2801 AGTAACTGGTTGAACAACTGTAA Yes Yes Yes No No 5p hsa-mir-668 chr14: 100591389-100591412 2802 TGTCACTCGGCTCGGCCCACTAC Yes Yes No Yes Yes hsa-mir- chr19: 58951821-58951844 2803 TTCTCGAGGAAAGAAGCACTTTC Yes No No No No 516a-5p hsa-mir- chr19: 58956213-58956236 2804 TTCTCGAGGAAAGAAGCACTTTC Yes No No No No 516a-5p hsa-mir-30a* chr6: 72169977-72169999 2805 GCTGCAAACATCCGACTGAAAG Yes Yes Yes Yes Yes hsa-mir-183 chr7: 129202042-129202064 2806 AGTGAATTCTACCAGTGCCATA Yes Yes Yes Yes Yes hsa-mir-186 chr1: 71305951-71305973 2807 AGCCCAAAAGGAGAATTCTTTG Yes Yes Yes Yes Yes hsa-mir-187 chr18: 31738795-31738817 2808 CCGGCTGCAACACAAGACACGA No Yes Yes Yes Yes hsa-mir-184 chr15: 77289236-77289258 2809 TGGACGGAGAACTGATAAGGGT Yes Yes Yes Yes Yes hsa-mir-185 chr22: 18400675-18400697 2810 TGGAGAGAAAGGCAGTTCCTGA Yes Yes Yes Yes Yes hsa-mir-198 chr3: 121597239-121597261 2811 GAACCTATCTCCCCTCTGGACC Yes No No No No hsa-let-7b chr22: 44888234-44888256 2812 TGAGGTAGTAGGTTGTGTGGTT Yes Yes Yes Yes Yes hsa-mir-455- chr9: 116011549-116011571 2813 TATGTGCCTTTGGACTACATCG Yes Yes Yes Yes Yes 5p hsa-mir-518c chr19: 58903861-58903884 2814 CAAAGCGCTTCTCTTTAGAGTGT Yes No No No No hsa-mir-770- chr14: 100388498-100388521 2815 TCCAGTACCACGTGTCAGGGCCA Yes Yes No No No 5p hsa-mir-380 chr14: 100561145-100561167 2816 TATGTAATATGGTCCACATCTT Yes No No No No hsa-mir-381 chr14: 100582057-100582079 2817 TATACAAGGGCAAGCTCTCTGT Yes Yes Yes Yes Yes hsa-mir-382 chr14: 100590405-100590427 2818 GAAGTTGTTCGTGGTGGATTCG Yes Yes Yes Yes Yes hsa-mir-383 chr8: 14755362-14755384 2819 AGCCACAATCACCTTCTGATCT Yes Yes Yes No No hsa-mir-384 chrX: 76056103-76056123 2820 TATGAACAATTTCTAGGAAT No Yes No No No hsa-mir-661 chr8: 145091361-145091385 2821 ACGCGCAGGCCAGAGACCCAGGCA No No No No No hsa-mir-421 chrX: 73354951-73354974 2822 GCGCCCAATTAATGTCTGTTGAT Yes Yes Yes Yes Yes hsa-mir-518f chr19: 58895132-58895153 2823 GAAAGCGCTTCTCTTTAGAGG Yes No No No No hsa-mir-660 chrX: 49664603-49664625 2824 TACCCATTGCATATCGGAGTTG Yes Yes Yes No No hsa-mir-425 chr3: 49032635-49032658 2825 TCAACGGGAGTGATCGTGTCATT Yes Yes Yes Yes Yes hsa-mir-424 chrX: 133508376-133508397 2826 TTCAAAACATGAATTGCTGCTG Yes Yes Yes No No hsa-mir- chr19: 58903823-58903646 2827 TCTCTGGAGGGAAGCACTTTCTG Yes No No No No 518c* hsa-mir-543 chr14: 100568122-100568144 2828 AAACATTCGCGGTGCACTTCTT Yes Yes Yes Yes Yes hsa-mir-18a chr13: 90801010-90801033 2829 TAAGGTGCATCTAGTGCAGATAG Yes No Yes Yes Yes hsa-mir-138- chr3: 44130769-44130791 2830 GCTACTTCACAACACCAGGGCC No No No Yes No 1* hsa-let-7e* chr19: 56887902-56887924 2831 CTATACGGCCTCCTAGCTTTCC Yes Yes Yes Yes Yes hsa-mir-545 chrX: 73423685-73423707 2832 GCACACAATAAATGTTTGCTGA Yes Yes No No No hsa-mir-549 chr15: 78921388-78921409 2833 AGAGCTCATCCATAGTTGTCA Yes Yes No No No hsa-mir-549 chr15: 78921423-78921444 2834 TGACAACTATGGATGAGCTCT Yes Yes No No No hsa-mir-133a chr20: 60572621-60572643 2835 TTTGGTCCCCTTCAACCAGCTG Yes Yes Yes Yes Yes hsa-mir-133a chr18: 17659670-17659692 2836 CAGCTGGTTGAAGGGGACCAAA Yes Yes Yes Yes Yes hsa-mir-574- chr4: 38546107-38546129 2837 CACGCTCATGCACACACCCACA No No Yes Yes No 3p hsa-mir-133b chr6: 52121744-52121766 2838 TTTGGTCCCCTTCAACCAGCTA Yes Yes Yes Yes Yes hsa-mir-1237 chr11: 63892730-63892751 2839 TCCTTCTGCTCCGTCCCCCAG Yes No No No No hsa-mir-220c chr19: 53755391-53755413 2840 AGTCTTCACAACAGCCCTGTGT No No No No No hsa-mir-369- chr14: 100601730-100601751 2841 AATAATACATGGTTGATCTTT Yes Yes No Yes Yes 3p hsa-mir-518e chr19: 58924956-58924977 2842 AAAGCGCTTCCCTTCAGAGTG Yes No No No No hsa-mir- chr19: 58875018-58875040 2843 TTCTCCAAAAGGGAGCACTTTC Yes No No No No 519e* hsa-mir-15a chr13: 49521303-49521325 2844 CACAAACCATTATGTGCTGCTA Yes Yes Yes Yes No hsa-mir-769- chr19: 51214058-51214080 2845 TGAGACCTCTGGGTTCTGAGCT No No No No No 5p hsa-mir-15b chr3: 161605088-161605110 2846 TAGCAGCACATCATGGTTTACA Yes Yes Yes Yes Yes hsa-mir-453 chr14: 100592322-100592345 2847 AGGTTGTCCGTGGTGAGTTCGCA Yes Yes Yes No No hsa-mir-876- chr9: 28853672-28853694 2848 TGGTGATTCACAAAGAAATCCA Yes Yes Yes No No 5p hsa-mir-1226 chr3: 47866101-47866123 2849 TCACCAGCCCTGTGTTCCCTAG Yes Yes No No No hsa-mir-802 chr21: 36014899-36014922 2850 CAGTAACAAAGATTCATCCTTGT Yes Yes Yes Yes Yes hsa-mir- chr19: 58885960-58885981 2851 CTCCAGAGGGAAGTACTTTCT Yes No No No No 520a-5p hsa-mir-552 chr1: 34907801-34907822 2852 TTGTCTAACCAGTCACCTGTT Yes No No No No hsa-mir-147b chr15: 43512587-43512609 2853 GTGTGCGGAAATGCTTCTGCTA Yes No Yes Yes Yes hsa-mir-432* chr14: 100420633-100420654 2854 CTGGATGGCTCCTCCATGTCT Yes Yes Yes No No hsa-mir-650 chr22: 21495284-21495305 2855 AGGAGGCAGCGCTCTCAGGAC Yes Yes No No No hsa-mir- chr5: 159844992-159845014 2856 CCTCTGAAATTCAGTTCTTCAG No No No No No 146a* hsa-mir-335 chr7: 129923202-129923225 2857 TCAAGAGCAATAACGAAAAATGT Yes Yes Yes Yes No hsa-mir- chr19: 58915214-58915236 2858 AAAGTGCTTCTCTTTGGTGGGT Yes No No No No 520d-3p hsa-mir-19b- chr13: 90801461-90801484 2859 AGTTTTGCAGGTTTGCATCCAGC Yes No Yes Yes Yes 1* hsa-mir-1231 chr1: 200044365-200044386 2860 GTGTCTGGGCGGACAGCTGC No No No No No hsa-mir- chr10: 104186302-104186324 2861 TGCCCTGTGGACTCAGTTCTGG Yes No No No No 146b-3p hsa-mir-875- chr8: 100618233-100618255 2862 CACCTGATAAAACTGAGGTATA Yes Yes Yes Yes Yes 5p hsa-mir-874 chr5: 137011169-137011191 2863 TCGGTCCCTCGGGCCAGGGCAG Yes Yes Yes Yes Yes hsa-mir-873 chr9: 28878922-28878943 2864 AGGAGACTCACAAGTTCCTGC Yes Yes Yes Yes Yes hsa-mir-15b* chr3: 161605126-161605148 2865 CGAATCATTATTTGCTGCTCTA Yes Yes Yes Yes Yes hsa-mir-25* chr7: 99529168-99529189 2866 CAATTGCCCAAGTCTCCGCCT Yes Yes Yes Yes No hsa-mir-1185 chr14: 100579080-100579101 2867 AGAGGATACCCTTTGTATGTT Yes Yes Yes No No hsa-mir-1185 chr14: 100580301-100580322 2868 AGAGGATACCCTTTGTATGTT Yes Yes Yes No No hsa-mir-720 chr3: 165541848-165541865 2869 TCTCGCTGGGGCCTCCA Yes No No No No hsa-mir-409- chr14: 100601435-100601457 2870 GAATGTTGCTCGGTGAACCCCT Yes Yes No Yes Yes 3p hsa-mir-1182 chr1: 229222209-229222232 2871 GTCACATCCCTCCCAAGACCCTC Yes Yes No No No hsa-mir-1179 chr15: 86952355-86952376 2872 AAGCATTCTTTCATTGGTTGG Yes Yes No No No hsa-mir-1178 chr12: 118635836-118635857 2873 CTAGGGAAGAACAGTGAGCAA Yes Yes No No No hsa-mir-367* chr4: 113788519-113788541 2874 AGAGTTGCATATTAGCAACAGT Yes Yes Yes No No hsa-mir-150 chr19: 54695900-54695922 2875 CACTGGTACAAGGGTTGGGAGA Yes Yes Yes Yes Yes hsa-mir-153 chr7: 157059801-157059823 2876 GATCACTTTTGTGACTATGCAA Yes Yes Yes Yes Yes hsa-mir-153 chr2: 219867091-219867113 2877 GATCACTTTTGTGACTATGCAA No Yes No No No hsa-mir-152 chr17: 43469538-43469559 2878 CCAAGTTCTGTCATGCACTGA Yes Yes Yes Yes Yes hsa-mir-155 chr21: 25868165-25868188 2879 TTAATGCTAATCGTGATAGGGGT Yes Yes Yes No No hsa-mir-154 chr14: 100595858-100595880 2880 TAGGTTATCCGTGTTGCCTTCG Yes Yes No Yes Yes hsa-mir-634 chr17: 62213711-62213733 2881 AACCAGCACCCCAACTTTGGAC Yes No No No No hsa-mir-377* chr14: 100598145-100598167 2882 AGAGGTTGCCCTTGGTGAATTC Yes Yes Yes Yes Yes hsa-mir-1228 chr12: 55874604-55874624 2883 TCACACCTGCCTCGCCCCCC No Yes No No No hsa-mir- chr1: 170380354-170380377 2884 GAACAGGTAGTCTGAACACTGGG Yes Yes Yes Yes Yes 199a-5p hsa-mir- chr19: 10789144-10789167 2885 GAACAGGTAGTCTGAACACTGGG Yes Yes Yes Yes No 199a-5p hsa-mir-767- chrX: 151312608-151312631 2886 CATGCTCAGACAACCATGGTGCA No Yes No No No 5p hsa-mir-151- chr8: 141811867-141811888 2887 CCTCAAGGAGCTTCAGTCTAG Yes Yes No No No 3p hsa-mir-154* chr14: 100595894-100595916 2888 AATCATACACGGTTGACCTATT Yes Yes No Yes Yes hsa-mir-483- chr11: 2111986-2112008 2889 CTCCCTTCTTTCCTCCCGTCTT No No No No No 5p hsa-mir-33a chr22: 40626898-40626919 2890 GTGCATTGTAGTTGCATTGCA Yes No Yes Yes Yes hsa-mir-33b chr17: 17657935-17657955 2891 GCAATGCAACAGCAATGCAC Yes Yes Yes No No hsa-mir-1304 chr11: 93106537-93106559 2892 CACATCTCACTGTAGCCTCAAA No Yes No No No hsa-mir-25 chr7: 99529129-99529151 2893 TCAGACCGAGACAAGTGCAATG No Yes Yes Yes Yes hsa-mir-1306 chr22: 18453634-18453652 2894 ACGTTGGCTCTGGTGGTG Yes Yes Yes Yes Yes hsa-mir-1307 chr10: 105144047-105144069 2895 CACGACCGACGCCACGCCGAGT Yes Yes Yes No No hsa-mir-1300 chr15: 51017866-51017884 2896 CAGCAGCCTCCTTCTCAA Yes No Yes Yes No hsa-mir-21 chr17: 55273415-55273437 2897 TAGCTTATCAGACTGATGTTGA Yes Yes Yes Yes Yes hsa-mir-22 chr17: 1563957-1563979 2898 ACAGTTCTTCAACTGGCAGCTT Yes No Yes Yes Yes hsa-mir-596 chr8: 1752818-1752839 2899 AAGCCTGCCCGGCTCCTCGGG No No No No No hsa-mir-599 chr8: 100618054-100618074 2900 GTTTGATAAACTGACACAAC Yes Yes Yes No No hsa-mir-598 chr8: 10930140-10930162 2901 TGACGATGACAACGATGACGTA Yes No No No No hsa-mir-610 chr11: 28034990-28035011 2902 TCCCAGCACACATTTAGCTCA Yes No No No No hsa-mir-610 chr11: 28034952-28034973 2903 TGAGCTAAATGTGTGCTGGGA Yes No No No No hsa-mir-611 chr11: 61316547-61316570 2904 GTCAGACCCCGAGGGGTCCTCGC No Yes No No No hsa-mir-616 chr12: 56199232-56199254 2905 CTGCTCAAACCCTCCAATGACT Yes No No No No hsa-mir-617 chr12: 79750502-79750524 2906 GCCACCTTCAAATGGGAAGTCT Yes No No No No hsa-mir-614 chr12: 12960082-12960105 2907 GAACGCCTGTTCTTGCCAGGTGG Yes No No No No hsa-mir-517c chr19: 58936434-58936456 2908 ATCGTGCATCCTTTTAGAGTGT No No No No No hsa-mir-517b chr19: 58916184-58916206 2909 TCGTGCATCCCTTTAGAGTGTT Yes No No No No hsa-mir-517a chr19: 58907386-58907408 2910 ATCGTGCATCCCTTTAGAGTGT Yes No No No No hsa-mir-495 chr14: 100569893-100569915 2911 AAACAAACATGGTGCACTTCTT Yes Yes Yes Yes Yes hsa-mir-671- chr7: 150566506-150566527 2912 TCCGGTTCTCAGGGCTCCACC Yes Yes Yes Yes Yes 3p hsa-mir- chr3: 52303287-52303309 2913 CGCCACGGCTCCAATCCCTATA Yes Yes Yes Yes No 135a* hsa-mir- chrX: 146102707-146102730 2914 CCTTCTCAGAAAGGTGAAATTTA No No No No No 513a-3p hsa-mir- chrX: 146115069-146115092 2915 CCTTCTCAGAAAGGTGAAATTTA Yes No No No No 513a-3p hsa-mir-525- chr19: 58892612-58892633 2916 CTCCAGAGGGATGCACTTTCT Yes Yes No No No 5p hsa-mir-758 chr14: 100562160-100562182 2917 TTTGTGACCTGGTCCACTAACC Yes No Yes Yes Yes hsa-mir-187* chr18: 31738831-31738853 2918 GCCCGGGTCCTGTGTTGTAGCC No No No Yes Yes hsa-mir- chr19: 58915176-58915196 2919 CTACAAAGGGAAGCCCTTTC Yes Yes No No No 520d-5p hsa-mir-522* chr19: 58946291-58946313 2920 CTCTAGAGGGAAGCGCTTTCTG Yes No No No No hsa-mir-101 chr9: 4840344-4840365 2921 TACAGTACTGTGATAACTGAA Yes Yes Yes No No hsa-mir-101 chr1: 65296712-65296733 2922 TTCAGTTATCACAGTACTGTA Yes Yes Yes Yes Yes hsa-mir-299- chr14: 100559921-100559943 2923 TATGTGGGATGGTAAACCGCTT No No No No No 3p hsa-mir-107 chr10: 91342492-91342515 2924 TGATAGCCCTGTACAATGCTGCT Yes Yes Yes Yes Yes hsa-mir-1278 chr1: 191372304-191372326 2925 TAGTACTGTGCATATCATCTAT No No No No No hsa-mir-1279 chr12: 67953234-67953251 2926 AGAAAGAAGCAATATGA No No Yes Yes No hsa-mir-219- chr6: 33283650-33283672 2927 AGAGTTGAGTCTGGACGTCCCG Yes Yes Yes No No 1-3p hsa-mir-541 chr14: 100600637-100600659 2928 TGGTGGGCACAGAATCTGGACT No No No No No hsa-mir-1270 chr19: 20371127-20371150 2929 ACACAGCTCTTCCATATCTCCAG No No No No No hsa-mir-1271 chr5: 175727568-175727590 2930 CTTGGCACCTAGCAAGCACTCA Yes Yes No No No hsa-mir-1272 chr15: 62841722-62841748 2931 TTTCAGAATTTGCTGCCATCATCATC Yes No No No No hsa-mir-1273 chr8: 101105388-101105413 2932 AAGAAAGAGTCTTGCTTTGTCGCCC Yes No No No No hsa-mir-1275 chr6: 34075772-34075789 2933 GACAGCCTCTCCCCCAC Yes No No No No hsa-mir-1276 chr15: 84114782-84114802 2934 TGTCTCCACAGGGCTCTTTA Yes No No No No hsa-mir-1277 chrX: 117404430-117404452 2935 TACGTAGATATATATGTATTTT No Yes Yes No No hsa-mir-488* chr1: 175265170-175265191 2936 TTGAGAGTGCCATTATCTGGG Yes Yes Yes No Yes hsa-mir-219- chr9: 130194731-130194753 2937 ACAGATGTCCAGCCACAATTCT Yes Yes Yes Yes Yes 2-3p hsa-mir-142- chr17: 53763642-53763663 2938 AGTAGTGCTTTCTACTTTATG Yes Yes Yes Yes Yes 5p hsa-mir-615- chr12: 52714060-52714082 2939 TCCGAGCCTGGGTCTCCCTCTT Yes Yes No Yes Yes 3p hsa-mir-130b chr22: 20337642-20337664 2940 CAGTGCAATGATGAAAGGGCAT Yes Yes Yes Yes Yes hsa-mir-506 chrX: 146119962-146119983 2941 TCTACTCAGAAGGGTGCCTTA Yes Yes No No No hsa-mir-507 chrX: 146120211-146120232 2942 TTCACTCCAAAAGGTGCAAAA Yes Yes No No No hsa-mir-504 chrX: 137577586-137577608 2943 GATAGAGTGCAGACCAGGGTCT Yes Yes Yes Yes No hsa-mir-885- chr3: 10411214-10411236 2944 AGAGGCAGGGTAGTGTAATGGA Yes Yes Yes No No 5p hsa-mir-944 chr3: 191030457-191030479 2945 AAATTATTGTACATCGGATGAG Yes No No No No hsa-mir-500 chrX: 49659790-49659813 2946 TAATCCTTGCTACCTGGGTGAGA Yes Yes Yes No No hsa-let-7d* chr9: 95980997-95981019 2947 CTATACGACCTGCTGCCTTTCT Yes Yes Yes Yes Yes hsa-mir-545* chrX: 73423723-73423745 2948 TCATCTAATAAACATTTACTGA Yes Yes No No No hsa-mir-942 chr1: 117438799-117438821 2949 TCTTCTCTGTTTTGGCCATGTG Yes No No No No hsa-mir- chr1: 1093120-1093142 2950 CATCTTACCGGACAGTGCTGGA Yes Yes Yes Yes Yes 200a* hsa-mir- chr11: 57165266-57165288 2951 TTCACATTGTGCTACTGTCTGC Yes Yes Yes No No 130a* hsa-mir-1266 chr15: 50356654-50356677 2952 AGCCCTGTTCTACAGCCCTGAGG Yes No No No No hsa-mir- chr6: 18680053-18680075 2953 CAAAACTGGCAATTACTTTTGC Yes No No No No 548a-3p hsa-mir- chr6: 135602050-135602072 2954 CAAAACTGGCAATTACTTTTGC Yes No No No No 548a-3p hsa-mir- chr8: 105565787-105565809 2955 GCAAAAGTAATTGCCAGTTTTG No No No No No 548a-3p hsa-mir-557 chr1: 166611445-166611468 2956 GTTTGCACGGGTGGGCCTTGTCT Yes No No No No hsa-mir-1238 chr19: 10523858-10523878 2957 CTTCCTCGTCTGTCTGCCCC No No No No No hsa-mir-920 chr12: 24256671-24256691 2958 GGGGAGCTGTGGAAGCAGTA Yes No No No No hsa-mir-921 chr1: 164390633-164390658 2959 GAATCCTGGTTCTGTCCCTCACTAG No No No No No hsa-mir-922 chr3: 198885765-198885788 2960 GACGTAGTCCTATTCTCTGCTGC No No No No No hsa-mir-923 chr17: 30502320-30502341 2961 AGTTTCTTTTCCTCCGCTGAC Yes No No No No hsa-mir-924 chr18: 35456114-35456134 2962 GCAAGACATCACAAGACTCT Yes No No No No hsa-mir- chr16: 14305337-14305359 2963 CGGGGTTTTGAGGGCGAGATGA Yes Yes Yes Yes No 193b* hsa-mir-378 chr5: 149092622-149092643 2964 ACTGGACTTGGAGTCAGAAGG Yes Yes Yes No No hsa-mir-320c chr18: 20155677-20155697 2965 AAAAGCTGGGTTGAGAGGGT Yes No No No No hsa-mir-320c chr18: 17517517-17517537 2966 AAAAGCTGGGTTGAGAGGGT Yes Yes No No No hsa-mir-320b chr1: 222511373-222511395 2967 TTGCCCTCTCAACCCAGCTTTT Yes Yes No No No hsa-mir-320b chr1: 117015931-117015953 2968 AAAAGCTGGGTTGAGAGGGCAA Yes Yes No No No hsa-mir-320a chr8: 22158432-22158454 2969 TCGCCCTCTCAACCCAGCTTTT Yes Yes Yes Yes Yes hsa-mir-324- chr17: 7067350-7067370 2970 CCAGCAGCACCTGGGGCAGT Yes Yes Yes Yes Yes 3p hsa-mir-370 chr14: 100447275-100447297 2971 GCCTGCTGGGGTGGAACCTGGT Yes Yes Yes Yes Yes hsa-mir-431* chr14: 100417158-100417180 2972 CAGGTCGTCTTGCAGGGCTTCT Yes Yes Yes Yes Yes hsa-mir-372 chr19: 58982996-58983019 2973 AAAGTGCTGCGACATTTGAGCGT Yes Yes No No No hsa-mir-375 chr2: 219574613-219574635 2974 TCACGCGAGCCGAACGAACAAA Yes Yes Yes Yes Yes hsa-mir-422a chr15: 61950240-61950262 2975 GCCTTCTGACCCTAAGTCCAGT Yes No No No No hsa-mir-377 chr14: 100598183-100598205 2976 ATCACACAAAGGCAACTTTTGT Yes Yes Yes Yes No hsa-mir-362- chrX: 49660352-49660374 2977 AACACACCTATTCAAGGATTCA Yes Yes Yes No No 3p hsa-mir-579 chr5: 32430254-32430277 2978 AATCGCGGTTTATACCAAATGAA Yes No No No No hsa-mir-578 chr4: 166526903-166526924 2979 CTTCTTGTGCTCTAGGATTGT Yes No No No No hsa-mir-24-2* chr19: 13808139-13808161 2980 CTGTGTTTCAGCTCAGTAGGCA Yes Yes Yes No No hsa-mir-573 chr4: 24130972-24130996 2981 CTGATCAGTTACACATCACTTCAG No No No No No hsa-mir-572 chr4: 10979608-10979628 2982 GTCCGCTCGGCGGTGGCCCA Yes Yes No No No hsa-mir-571 chr4: 334005-334026 2983 TGAGTTGGCCATCTGAGTGAG No No No No No hsa-mir-570 chr3: 196911510-196911532 2984 CGAAAACAGCAATTACCTTTGC No No No No No hsa-mir-577 chr4: 115797378-115797399 2985 TAGATAAAATATTGGTACCTG Yes Yes No No No hsa-mir- chr19: 58902571-58902593 2986 AAAGTGCTTCCTTTTAGAGGGT Yes No No No No 520c-3p hsa-mir-509- chrX: 146148905-146148927 2987 CATGATTGCCACGTCTGCAGTA Yes No No No No 3-5p hsa-mir-23a* chr19: 13808443-13808465 2988 AAATCCCATCCCCAGGAACCCC Yes Yes Yes Yes Yes hsa-mir-518f* chr19: 58895095-58895117 2989 CTCTAGAGGGAAGCACTTTCTC Yes No No No No hsa-mir-195* chr17: 6861670-6861692 2990 GGAGCAGCACAGCCAATATTGG Yes Yes No Yes Yes hsa-mir-576- chr4: 110629317-110629339 2991 ATTCTAATTTCTCCACGTCTTT No No No No No 5p hsa-mir-575 chr4: 83893528-83893547 2992 GCTCCTGTCCAACTGGCTC Yes No No No No hsa-mir-21* chr17: 55273453-55273474 2993 CAACACCAGTCGATGGGCTGT Yes Yes No No No hsa-mir-27b* chr9: 96887565-96887587 2994 AGAGCTTAGCTGATTGGTGAAC Yes Yes Yes Yes Yes hsa-mir-217 chr2: 56063658-56063681 2995 TCCAATCAGTTCCTGATGCAGTA Yes Yes Yes No No hsa-mir-214 chr1: 170374578-170374600 2996 ACTGCCTGTCTGTGCCTGCTGT Yes Yes Yes Yes Yes hsa-mir-215 chr1: 218357880-218357901 2997 GTCTGTCAATTCATAGGTCAT Yes Yes No No No hsa-mir-212 chr17: 1900333-1900354 2998 GGCCGTGACTGGAGACTGTTA No No Yes Yes Yes hsa-mir-210 chr11: 558111-558133 2999 TCAGCCGCTGTCACACGCACAG Yes Yes Yes Yes Yes hsa-mir-211 chr15: 29144589-29144611 3000 AGGCGAAGGATGACAAAGGGAA Yes No No No No hsa-mir-92a chrX: 133131239-133131261 3001 ACAGGCCGGGACAAGTGCAATA Yes Yes Yes No No hsa-mir-92a chr13: 90801615-90801637 3002 TATTGCACTTGTCCCGGCCTGT Yes Yes Yes Yes Yes hsa-mir-92b chr1: 153431651-153431673 3003 TATTGCACTCGTCCCGGCCTCC No Yes Yes Yes Yes hsa-mir-218 chr4: 20139019-20139040 3004 TTGTGCTTGATCTAACCATGT Yes Yes Yes Yes Yes hsa-mir-218 chr5: 168127793-168127814 3005 ACATGGTTAGATCAAGCACAA Yes Yes Yes Yes Yes hsa-mir-515- chr19: 58874118-58874140 3006 GAGTGCCTTCTTTTGGAGCGTT Yes No No No No 3p hsa-mir-515- chr19: 58880124-58880146 3007 GAGTGCCTTCTTTTGGAGCGTT Yes No No No No 3p hsa-mir-1 chr18: 17662973-17662995 3008 ATACATACTTCTTTACATTCCA Yes Yes Yes Yes No hsa-mir-1 chr20: 60562002-60562024 3009 TGGAATGTAAAGAAGTATGTAT Yes Yes Yes Yes No hsa-mir-425* chr3: 49032595-49032617 3010 GGGCGGACACGACATTCCCGAT Yes Yes Yes Yes No hsa-mir-522 chr19: 58946329-58946351 3011 AAAATGGTTCCCTTTAGAGTGT Yes Yes No No No hsa-mir-7 chr9: 85774546-85774569 3012 ACAACAAAATCACTAGTCTTCCA Yes Yes Yes Yes Yes hsa-mir-7 chr15: 86956090-86956113 3013 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes Yes Yes hsa-mir-7 chr19: 4721711-4721734 3014 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes No No hsa-mir-9 chr15: 87712266-87712289 3015 TCTTTGGTTATCTAGCTGTATGA No Yes Yes Yes Yes hsa-mir-9 chr1: 154656807-154656830 3016 TCATACAGCTAGATAACCAAAGA Yes Yes Yes Yes Yes hsa-mir-9 chr5: 87998475-87998498 3017 TCATACAGCTAGATAACCAAAGA Yes Yes Yes Yes Yes hsa-mir-615- chr12: 52714017-52714039 3018 GGGGGTCCCCGGTGCTCGGATC Yes Yes No Yes Yes 5p hsa-mir-512- chr19: 58861794-58861816 3019 AAGTGCTGTCATAGCTGAGGTC Yes No No No No 3p hsa-mir-512- chr19: 58864278-58864300 3020 AAGTGCTGTCATAGCTGAGGTC No No No No No 3p hsa-mir-202* chr10: 134911066-134911088 3021 CAAAGAAGTATATGCATAGGAA Yes No Yes Yes Yes hsa-mir-888* chrX: 144884003-144884025 3022 TTCACCCAAAGAGGTGTCAGTC No No No No No hsa-mir-143* chr5: 148788699-148788721 3023 GGTGCAGTGCTGCATCTCTGGT Yes Yes Yes Yes Yes hsa-mir-526b chr19: 58889471-58889494 3024 CTCTTGAGGGAAGCACTTTCTGT Yes Yes No No No hsa-mir-656 chr14: 100602855-100602876 3025 AATATTATACAGTCAACCTCT Yes Yes Yes No No hsa-mir-657 chr17: 76713685-76713708 3026 CCTAGAGAGGGTGAGAACCTGCC Yes No No No No hsa-mir-655 chr14: 100585699-100585721 3027 ATAATACATGGTTAACCTCTTT Yes No Yes No No hsa-mir-652 chrX: 109185272-109185293 3028 AATGGCGCCACTAGGGTTGTG Yes Yes No No No hsa-mir-653 chr7: 92950070-92950091 3029 CAGTAGAGATTGTTTCAACAC Yes Yes No Yes No hsa-mir- chr19: 58926121-58926143 3030 GAAAGCGCTTCCCTTTGCTGGA No No No No No 518a-3p hsa-mir- chr19: 58934450-58934472 3031 GAAAGCGCTTCCCTTTGCTGGA Yes No No No No 518a-3p hsa-mir-651 chrX: 8055020-8055042 3032 TTTAGGATAAGCTTGACTTTTG No No No No No hsa-mir-302f chr18: 26132899-26132916 3033 TAATTGCTTCCATGTTT Yes Yes No No No hsa-mir-1184 chrX: 154265958-154265981 3034 GGAAGCCATCAAGTCGCTGCAGG Yes Yes No No No hsa-mir-1184 chrX: 154340431-154340454 3035 CCTGCAGCGACTTGATGGCTTCC Yes Yes No No No hsa-mir-1184 chrX: 153768844-153768867 3036 GGAAGCCATCAAGTCGCTGCAGG Yes Yes No No No hsa-mir-302d chr4: 113788610-113788633 3037 ACACTCAAACATGGAAGCACTTA Yes Yes No Yes No hsa-mir-302c chr4: 113788970-113788993 3038 CCACTGAAACATGGAAGCACTTA Yes Yes Yes No No hsa-mir-302b chr4: 13789093-113789116 3039 CTACTAAAACATGGAAGCACTTA Yes Yes Yes Yes No hsa-mir-1180 chr17: 19188418-19188440 3040 ACACACCCACGCGAGCCGGAAA Yes Yes No No No hsa-mir-1181 chr19: 10375180-10375201 3041 CGGCTCGGGTGGCGGCGACGG Yes No No No No hsa-mir-629* chr15: 68158779-68158801 3042 GCTGGGCTTACGTTGGGAGAAC No No No No No hsa-mir-302e chr11: 7212577-7212594 3043 TAAGTGCTTCCATGCTT Yes Yes No No No hsa-mir-103 chr5: 167920486-167920509 3044 TCATAGCCCTGTACAATGCTGCT Yes Yes Yes Yes Yes hsa-mir-103 chr20: 3846187-3846210 3045 AGCAGCATTGTACAGGGCTATGA Yes Yes Yes Yes Yes hsa-mir-100 chr11: 121528192-121528214 3046 CACAAGTTCGGATCTACGGGTT Yes Yes No Yes Yes hsa-mir-138- chr16: 55449986-55450008 3047 GCTATTTCACGACACCAGGGTT Yes Yes Yes Yes Yes 2* hsa-mir-122* chr18: 54269335-54269357 3048 AACGCCATTATCACACTAAATA Yes Yes Yes Yes No hsa-mir-105 chrX: 151311392-151311415 3049 ACCACAGGAGTCTGAGCATTTGA Yes Yes Yes No No hsa-mir-105 chrX: 15131585-151313608 3050 ACCACAGGAGTCTGAGCATTTGA Yes Yes No No No hsa-mir-223* chrX: 65155461-65155483 3051 CGTGTATTTGACAAGCTGAGTT Yes Yes Yes Yes Yes hsa-mir-363* chrX: 133131120-133131142 3052 AAATTGCATCGTGATCCACCCG No Yes Yes No Yes hsa-mir-28- chr3: 189889275-189889297 3053 AAGGAGCTCACAGTCTATTGAG Yes Yes Yes Yes Yes 5p hsa-mir-150* chr19: 54695865-54695887 3054 CTGTCCCCCAGGCCTGTACCAG Yes Yes No No Yes hsa-mir-99a* chr21: 16833328-16833350 3055 CAAGCTCGCTTCTATGGGTCTG Yes Yes Yes No No hsa-mir-1825 chr20: 30289293-30289311 3056 TCCAGTGCCCTCCTCTCC Yes Yes No No No hsa-mir-129* chr7: 127635208-127635230 3057 AAGCCCTTACCCCAAAAAGTAT Yes Yes Yes Yes Yes hsa-mir-556- chr1: 160579013-160579035 3058 ATATTACCATTAGCTCATCTTT Yes No No No No 3p hsa-mir-10b chr2: 176723302-176723325 3059 TACCCTGTAGAACCGAATTTGTG Yes Yes Yes Yes Yes hsa-mir-1827 chr12: 99107840-99107858 3060 TGAGGCAGTAGATTGAAT Yes Yes No No No hsa-mir-10a chr17: 44012264-44012287 3061 CACAAATTCGGATCTACAGGGTA Yes Yes Yes Yes Yes hsa-mir-623 chr13: 98606400-98806423 3062 ATCCCTTGCAGGGGCTGTTGGGT No No No No No hsa-mir-622 chr13: 89681496-89681517 3063 ACAGTCTGCTGAGGTTGGAGC Yes No No No No hsa-mir-621 chr13: 40282961-40282982 3064 GGCTAGCAACAGCGCTTACCT Yes No No No No hsa-mir-620 chr12: 115070762-115070782 3065 ATTTCTATATCTATCTCCAT No No No No No hsa-mir-127- chr14: 100419090-100419112 3066 CTGAAGCTCAGAGGGCTCTGAT Yes Yes Yes Yes Yes 5p hsa-mir-626 chr15: 39771134-39771153 3067 AGCTGTCTGAAAATGTCTT Yes No No No No hsa-mir-625 chr14: 65007622-65007643 3068 GGACTATAGAACTTTCCCCCT Yes No No No No hsa-mir-625 chr14: 65007586-65007607 3069 AGGGGGAAAGTTCTATAGTCC Yes No No No No hsa-mir-182* chr7: 129197481-129197502 3070 TAGTTGGCAAGTCTAGAACCA Yes Yes Yes Yes No hsa-mir-1292 chr20: 2581424-2581449 3071 TGGGAACGGGTTCCGGCAGACGCTG Yes No No No No hsa-mir-342- chr14: 99645804-99645827 3072 TCTCACACAGAAATCGCACCCGT Yes Yes Yes Yes Yes 3p hsa-mir-1290 chr1: 19096158-19096177 3073 TCCCTGATCCAAAAATCCA Yes No No No No hsa-mir-1291 chr12: 47334543-47334567 3074 ACTGCTGGTCTTCAGTCAGGGCCA Yes No No No No hsa-mir-1296 chr10: 64802777-64802799 3075 GGAGATGGAGCCAGGGCCCTAA Yes Yes Yes No No hsa-mir-1297 chr13: 53784116-53784133 3076 CACCTGAATTACTTGAA Yes Yes Yes No No hsa-mir-1294 chr5: 153706905-153706927 3077 TGTGAGGTTGGCATTGTTGTCT Yes No No No No hsa-mir- chr16: 2080264-2080286 3078 CCCCCCACTGGGCCGTACCCAC Yes Yes Yes Yes Yes 1225-5p hsa-mir-509- chrX: 146148020-146148041 3079 TGATTGCCACTGTCTGCAGTA Yes No No No No 5p hsa-mir-509- chrX: 146149795-146149816 3080 TGATTGCCACTGTCTGCAGTA Yes No No No No 5p hsa-mir- chr3: 185441950-185441971 3081 CCCCACCTCCTCTCTCCTCAG Yes Yes Yes No No 1224-3p hsa-mir-140- chr16: 68524545-68524566 3082 TACCACAGGGTAGAACCACGG Yes Yes Yes Yes Yes 3p hsa-mir-532- chrX: 49654549-49654571 3083 CCTCCCACACCCAAGGCTTGCA Yes Yes Yes Yes Yes 3p hsa-mir-1298 chrX: 113855922-113855944 3084 TTCATTCGGCTGTCCAGATGTA Yes Yes Yes Yes Yes hsa-mir-26b chr2: 218975623-218975644 3085 TTCAAGTAATTCAGGATAGGT Yes Yes Yes Yes Yes hsa-let-7f-2* chrX: 53600881-53600903 3086 GGAAAGACAGTAGACTGTATAG Yes Yes Yes Yes Yes hsa-mir-585 chr5: 168623197-168623216 3087 TAGCATACAGATACGCCCA No No No No No hsa-mir-490- chr7: 136238491-136238511 3088 CCATGGATCTCCAGGTGGGT Yes Yes Yes Yes Yes 5p hsa-mir- chr19: 58881587-58881609 3089 AAAGTGCATCTTTTTAGAGGAT Yes No No No No 519c-3p hsa-mir- chrX: 146115109-146115127 3090 ATGACACCTCCCTGTGAA Yes Yes No No No 513a-5p hsa-mir- chrX: 146102747-146102765 3091 ATGACACCTCCCTGTGAA Yes Yes No No No 513a-5p hsa-mir-591 chr7: 95686969-95686989 3092 ACAATGAGAACCCATGGTCT Yes No No No No hsa-mir-191* chr3: 49033067-49033089 3093 GGGGACGAAATCCAAGCGCAGC Yes Yes No No No hsa-mir-1305 chr4: 183327489-183327511 3094 TTTTCAACTCTAATGGGAGAGA No No No No No hsa-mir-624 chr14: 30553625-30553646 3095 AGGTAATACCAATACCTTGTG Yes No No No No hsa-mir-593 chr7: 127509226-127509245 3096 TGTCTCTGCTGGGGTTTCT Yes Yes No No No hsa-mir-302a chr4: 113788790-113788813 3097 TCACCAAAACATGGAAGCACTTA Yes Yes No Yes No hsa-mir-592 chr7: 126485437-126485459 3098 ACATCATCGCATATTGACACAA Yes Yes Yes Yes Yes hsa-mir-1293 chr12: 48914231-48914253 3099 GCACAAATCTCCAGACCACCCA Yes No No No No hsa-mir-30e* chr1: 40992671-40992693 3100 CTTTCAGTCGGATGTTTACAGC Yes Yes Yes Yes Yes hsa-mir-432 chr14: 100420585-100420608 3101 TCTTGGAGTAGGTCATTGGGTGG Yes Yes Yes No No hsa-mir-629 chr15: 68158819-68158840 3102 AGTTCTCCCAACGTAAACCCA No No No No No hsa-mir-96* chr7: 129201772-129201794 3103 CATATTGGCACTGCACATGATT Yes Yes Yes No Yes hsa-mir-1301 chr2: 25405023-25405047 3104 GAAGTCACTCCCAGGCAGCTGCAA No No Yes No No hsa-mir- chr1: 1092366-1092388 3105 CATCTTACTGGGCAGCATTGGA No No Yes Yes Yes 200b* hsa-mir- chr19: 13846576-13846598 3106 AACCATCGACCGTTGAGTGGAC Yes Yes Yes Yes Yes 181c* hsa-mir-508- chrX: 146126154-146126177 3107 TCTACTCCAAAAGGCTACAATCA No No No No No 3p hsa-mir-1303 chr5: 154045579-154045601 3108 TTTAGAGACGGGGTCTTGCTCT Yes No No No No hsa-mir-539 chr14: 100583418-100583440 3109 GGAGAAATTATCCTTGGTGTGT Yes Yes Yes Yes Yes hsa-mir-10b* chr2: 176723341-176723363 3110 ACAGATTCGATTCTAGGGGAAT Yes Yes Yes Yes Yes hsa-mir-612 chr11: 64968519-64968544 3111 GCTGGGCAGGGCTTCTGAGCTCCTT Yes No No No No hsa-mir-613 chr12: 12808909-12808929 3112 AGGAATGTTCCTTCTTTGCC Yes No No No No hsa-mir-1295 chr1: 169337502-169337523 3113 TCACCCAGATCTGCGGCCTAA Yes No No No No hsa-mir-196a chr17: 44064892-44064914 3114 CCCAACAACATGAAACTACCTA Yes Yes Yes Yes No hsa-mir-196a chr12: 52671812-52671834 3115 TAGGTAGTTTCATGTTGTTGGG Yes Yes Yes Yes Yes hsa-mir-196b chr7: 27175671-27175693 3116 CCCAACAACAGGAAACTACCTA Yes Yes Yes Yes Yes hsa-mir-296- chr20: 56826075-56826097 3117 GGAGAGCCTCCACCCAACCCTC Yes Yes No Yes Yes 3p hsa-mir- chr19: 58929994-58930015 3118 CAAAGCGCTTCCCTTTGGAGC Yes No No No No 518d-3p hsa-mir-1308 chrX: 21990211-21990229 3119 CCACTGAACCACCCATGC No No No No No hsa-mir-92a- chrX: 133131278-133131300 3120 GTAATGCAACAAATCCCCACCC Yes Yes No No No 2* hsa-mir-658 chr22: 36570239-36570264 3121 ACCAACGGACCTACTTCCCTCCGCC No No No No No hsa-mir- chr7: 99529560-99529582 3122 GCAGCAAGTACCCACAGTGCGG Yes Yes Yes Yes Yes 106b* hsa-mir- chrX: 73423854-73423876 3123 AATTACAATACAATCTGATAAG Yes Yes No No No 374a* hsa-mir-595 chr7: 158018185-158018206 3124 AGACACACCACGGCACACTTC Yes No No No No hsa-mir- chr19: 58929957-58929979 3125 CTCTAGAGGGAAGCACTTTCTG Yes No No No No 518d-5p hsa-mir-590- chr7: 73243478-73243500 3126 GAGCTTATTCATAAAAGTGCAG Yes Yes No No No 5p hsa-mir-448 chrX: 113964342-113964364 3127 TTGCATATGTAGGATGTCCCAT Yes Yes Yes Yes Yes hsa-mir-326 chr11: 74723799-74723819 3128 CTGGAGGAAGGGCCCAGAGG Yes No Yes Yes Yes hsa-mir-325 chrX: 76142279-76142302 3129 ACACTTACTGGACACCTACTAGG No Yes No No No hsa-mir-632 chr17: 27701300-27701319 3130 GTGTCTGCTTCCTGTGGGA Yes Yes No No No hsa-mir-328 chr16: 65793730-65793752 3131 ACGGAAGGGCAGAGAGGGCCAG Yes No Yes Yes Yes hsa-mir-329 chr14: 100563240-100563262 3132 AACACACCTGGTTAACCTCTTT Yes Yes No No No hsa-mir-329 chr14: 100562923-100562945 3133 AACACACCTGGTTAACCTCTTT Yes Yes Yes No No hsa-mir-659 chr22: 36573645-36573667 3134 TGGGGACCCTCCCTGAACCAAG No No No No No hsa-mir-214* chr1: 170374619-170374641 3135 GCACAGCAAGTGTAGACAGGCA Yes Yes Yes Yes Yes hsa-mir-483- chr11: 2111947-2111968 3136 AAGACGGGAGGAGAGGAGTGA No No No No No 3p hsa-mir- chr14: 100576877-100576899 3137 GTAGATTCTCCTTCTATGAGTA Yes Yes Yes Yes Yes 376a* hsa-mir-218- chr4: 20139062-20139084 3138 ATGGTTCCGTCAAGCACCATGG Yes Yes Yes Yes Yes 1* hsa-mir- chr4: 113788649-113788671 3139 GCAAGTGCCTCCATGTTAAAGT Yes Yes Yes Yes No 302d* hsa-mir-887 chr5: 15988337-15988359 3140 GTGAACGGGCGCCATCCCGAGG No Yes No No No hsa-mir-380* chr14: 100561110-100561132 3141 TGGTTGACCATAGAACATGCGC Yes Yes Yes Yes Yes hsa-mir-32* chr9: 110848331-110848353 3142 AAATATCACACACACTAAATTG Yes Yes Yes Yes No hsa-mir-889 chr14: 100584038-100584059 3143 TTAATATCGGACAACCATTGT Yes Yes Yes No No hsa-mir-768- chr16: 70349860-70349886 3144 ATCACTCCGTACTTTCATCCTCCAAC Yes Yes No No No 5p hsa-mir-501- chrX: 49661119-49661141 3145 AATGCACCCGGGCAAGGATTCT Yes No No No No 3p hsa-mir-485- chr14: 100591553-100591575 3146 GTCATACACGGCTCTCCTCTCT Yes Yes Yes Yes Yes 3p hsa-mir-1234 chr8: 145596285-145596307 3147 GTGGGGTGGGTGGTCAGGCCGA Yes Yes No No No hsa-mir-22* chr17: 1563995-1564017 3148 TAAAGCTTGCCACTGAAGAACT Yes No Yes Yes Yes hsa-mir- chr19: 56888332-56888356 3149 TCCCTGAGACCCTTTAACCTGTGA Yes Yes Yes Yes Yes 125a-5p hsa-mir-643 chr19: 57476921-57476943 3150 ACTTGTATGCTAGCTCAGGTAG Yes No No No No hsa-mir-147 chr9: 122047083-122047103 3151 GCAGAAGCATTTCCACACAC Yes Yes No No No hsa-mir-144 chr17: 24212691-24212711 3152 AGTACATCATCTATACTGTA Yes Yes Yes Yes Yes hsa-mir-145 chr5: 148790416-148790439 3153 GTCCAGTTTTCCCAGGAATCCCT Yes Yes Yes Yes Yes hsa-mir-143 chr5: 148788733-148788754 3154 TGAGATGAAGCACTGTAGCTC Yes Yes Yes Yes Yes hsa-mir-597 chr8: 9636606-9636628 3155 TGTGTCACTCGATGACCACTGT Yes No No No No hsa-mir-141 chr12: 6943578-6943600 3156 TAACACTGTCTGGTAAAGATGG Yes Yes Yes Yes Yes hsa-mir-512- chr19: 58864241-58864264 3157 CACTCAGCCTTGAGGGCACTTTC Yes No No No No 5p hsa-mir-512- chr19: 58861757-58861780 3158 CACTCAGCCTTGAGGGCACTTTC Yes No No No No 5p hsa-mir-323- chr14: 100561836-100561858 3159 AGGTGGTCCGTGGCGCGTTCGC Yes Yes Yes Yes Yes 5p hsa-mir-224 chrX: 150877758-150877779 3160 AACGGAACCACTAGTGACTTG Yes Yes Yes No Yes hsa-mir-223 chrX: 65155503-65155525 3161 TGTCGTTTGTCAAATACCCCA Yes Yes Yes Yes Yes hsa-mir-222 chrX: 45491385-45491406 3162 ACCCAGTAGCCAGATGTAGCT No Yes Yes Yes Yes hsa-mir-221 chrX: 45490551-45490574 3163 GAAACCCAGCAGACAATGTAGCT Yes Yes Yes Yes Yes hsa-mir-149 chr2: 241044104-241044127 3164 TCTGGCTCCGTGTCTTCACTCCC Yes Yes Yes Yes No hsa-mir- chr19: 58885998-58886020 3165 AAAGTGCTTCCCTTTGGACTGT Yes Yes No No No 520a-3p hsa-mir- chr12: 63302579-63302601 3166 AAAAGTAATTGCGGTTTTTGCC Yes No No No No 548c-5p hsa-mir-374b chrX: 73355146-73355168 3167 CACTTAGCAGGTTGTATTATAT Yes Yes Yes Yes Yes hsa-mir-26a chr12: 56504707-56504729 3168 AGCCTATCCTGGATTACTTGAA Yes Yes Yes Yes No hsa-mir-26a chr3: 37985907-37985929 3169 TTCAAGTAATCCAGGATAGGCT Yes Yes Yes Yes Yes hsa-mir-374a chrX: 73423884-73423906 3170 CACTTATCAGGTTGTATTATAA Yes Yes Yes No No hsa-mir-1302 chr9: 99165698-99165719 3171 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr15: 100318229-100318250 3172 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr12: 111617269-111617290 3173 TTTAGCATAAGTATGTCCCAA Yes No No No No hsa-mir-1302 chr8: 142665522-142865543 3174 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr2: 114057050-114057071 3175 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr1: 20300-20321 3176 TTGGGACATACTTATGCTAAA Yes Yes No No No hsa-mir-1302 chr7: 18133381-18133402 3177 TTTAGCATAAGTATGTCCCAA Yes No No No No hsa-mir-1302 chr19: 23044-23065 3178 TTGGGACATACTTATGCTAAA Yes Yes No No No hsa-mir-1302 chr2: 207842296-207842317 3179 TTTAGCATAAGTATGTCCCAA No Yes No No No hsa-mir-1302 chr9: 20215-20236 3180 TTGGGACATACTTATGCTAAA Yes Yes No No No hsa-mir-1302 chr20: 48664632-48664653 3181 TTTAGCATAAGTATGTCCCAA No No No No No hsa-mir-624* chr14: 30553662-30553684 3182 TGAACACAAGGTACTGGTACTA Yes No No No No hsa-mir-619 chr12: 107754827-107754851 3183 ACTGGGCACAAACATGTCCAGGTC Yes No No No No hsa-mir-586 chr6: 45273448-45273470 3184 GGACCTAAAAATACAATGCATA Yes No No No No hsa-mir-587 chr6: 107338707-107338728 3185 TTTCCATAGGTGATGAGTCAC Yes No No No No hsa-mir-584 chr5: 148422128-148422150 3186 CTCAGTCCCAGGCAAACCATAA Yes Yes No No No hsa-mir-30d* chr8: 135886303-135886325 3187 GCAGCAAACATCTGACTGAAAG Yes Yes Yes Yes Yes hsa-mir-450a chrX: 133502088-133502110 3188 ATATTAGGAACACATCGCAAAA Yes Yes Yes Yes No hsa-mir-450a chrX: 133502259-133502281 3189 ATATTAGGAACACATCGCAAAA Yes Yes Yes Yes Yes hsa-mir-583 chr5: 95440612-95440633 3190 CAAAGAGGAAGGTCCCATTAC Yes No No No No hsa-mir-580 chr5: 36183765-36183787 3191 CCTAATGATTCATCATTCTCAA Yes No No No No hsa-mir-581 chr5: 53283150-53283171 3192 ACTGATCTAGAGAACACAAGA Yes No No No No hsa-mir-129- chr11: 43559575-43559597 3193 AAGCCCTTACCCCAAAAAGCAT Yes Yes Yes Yes Yes 3p hsa-mir-331- chr12: 94226351-94226373 3194 CTAGGTATGGTCCCAGGGATCC Yes Yes Yes Yes Yes 5p hsa-mir-665 chr14: 100411164-100411184 3195 ACCAGGAGGCTGAGGCCCCT Yes Yes No No No hsa-mir-664 chr1: 218440513-218440536 3196 TGTAGGCTGGGGATAAATGAATA Yes Yes No No No hsa-mir-663 chr20: 26136878-26136900 3197 GCGGTCCCGCGGCGCCCCGCCT Yes No No No No hsa-mir-662 chr16: 760243-760264 3198 TCCCACGTTGTGGCCCAGCAG No Yes No No No hsa-mir-588 chr6: 126847484-126847505 3199 TTGGCCACAATGGGTTAGAAC Yes No No No No hsa-mir-589 chr7: 5502029-5502051 3200 CTCAGAGCAGACGTGGTTCTCA No Yes No No No hsa-mir-220a chrX: 122523693-122523714 3201 AAAGTGTCAGATACGGTGTGG Yes No No No No hsa-mir-220b chr19: 6446968-6446989 3202 CCACCACCGTGTCTGACACTT Yes No No No No hsa-mir-371- chr19: 58982781-58982804 3203 AAGTGCCGCCATCTTTTGAGTGT Yes No No No No 3p hsa-mir-744 chr17: 11925950-11925972 3204 TGCGGGGCTAGGGCTAACAGCA Yes Yes Yes Yes No hsa-mir-934 chrX: 135460716-135460738 3205 TGTCTACTACTGGAGACACTGG Yes No No No No hsa-mir-628- chr15: 53452480-53452502 3206 CCTCTAGTAAATATGTCAGCAT Yes Yes Yes No No 5p hsa-mir-888 chrX: 144884039-144884060 3207 TGACTGACAGCTTTTTGAGTA No Yes No No No hsa-mir-126* chr9: 138684888-138684909 3208 CATTATTACTTTTGGTACGCG Yes Yes Yes Yes Yes hsa-mir-99b* chr19: 56887720-56887742 3209 CAAGCTCGTGTCTGTGGGTCCG Yes Yes No Yes Yes hsa-mir-137 chr1: 98284234-98284257 3210 CTACGCGTATTCTTAAGCAATAA Yes Yes Yes Yes Yes hsa-mir-136 chr14: 100420805-100420828 3211 ACTCCATTTGTTTTGATGATGGA Yes Yes Yes Yes Yes hsa-mir-149* chr2: 241044145-241044166 3212 AGGGAGGGACGGGGGCTGTGC Yes Yes Yes No No hsa-mir-134 chr14: 100590783-100590805 3213 TGTGACTGGTTGACCAGAGGGG Yes Yes Yes Yes Yes hsa-mir-138 chr16: 55449939-55449962 3214 AGCTGGTGTTGTGAATCAGGCCG Yes Yes No Yes Yes hsa-mir-138 chr3: 44130729-44130752 3215 AGCTGGTGTTGTGAATCAGGCCG No No Yes Yes Yes hsa-mir-1269 chr4: 66825202-66825224 3216 CTGGACTGAGCCGTGCTACTGG No No No No No hsa-mir-1268 chr15: 20014622-20014640 3217 CCCCCACCACCACGCCCG No No No No No hsa-mir- chr12: 52671849-52671871 3218 CGGCAACAAGAAACTGCCTGAG Yes Yes Yes Yes Yes 196a* hsa-mir-20b* chrX: 133131508-133131530 3219 CTGGAAGTGCCCATACTACAGT Yes No No No No hsa-mir- chr19: 10789104-10789126 3220 TAACCAATGTGCAGACTACTGT Yes Yes Yes Yes No 199a-3p hsa-mir- chr1: 170380316-170380338 3221 TAACCAATGTGCAGACTACTGT Yes Yes Yes Yes Yes 199a-3p hsa-mir-1263 chr3: 165372004-165372026 3222 ACTCAGTATGCCAGGGTACCAT Yes No No No No hsa-mir-1262 chr1: 68421846-68421868 3223 ATCCTTCTACAAATTCACCCAT Yes Yes No No No hsa-mir-1261 chr11: 90241995-90242014 3224 AAGCCAAAGCCTTATCCAT Yes No No No No hsa-mir-1260 chr14: 76802326-76802344 3225 ATCCCACCTCTGCCACCA No Yes No No No hsa-mir-1267 chr13: 106981565-106981586 3226 TGGGGATTACACTTCAACAGG Yes No No No No hsa-mir-151- chr8: 141811903-141811924 3227 ACTAGACTGTGAGCTCCTCGA Yes Yes Yes No No 5p hsa-mir-1265 chr10: 14518593-14518615 3228 CAGGATGTGGTCAAGTGTTGTT Yes No No No No hsa-mir-1264 chrX: 113793426-113793449 3229 CAAGTCTTATTTGAGCACCTGTT Yes Yes Yes No No hsa-mir- chr21: 16884480-16884502 3230 TCACAAGTCAGGCTCTTGGGAC Yes Yes Yes No Yes 125b-2* hsa-mir-33a* chr22: 40626938-40626960 3231 CAATGTTTCCACAGTGCATCAC Yes No No Yes Yes hsa-mir-339- chr7: 1029151-1029174 3232 CGTGAGCTCCTGGAGGACAGGGA Yes Yes No Yes No 5p hsa-mir-708* chr11: 78790723-78790745 3233 CTAGAAGCTCACAGTCTAGTTG Yes Yes Yes Yes Yes hsa-mir- chr4: 102470544-102470567 3234 AATCTACTTTCTTTGCTCATCCT No No No No No 1255a hsa-mir- chr4: 36104421-36104443 3235 AACCACTTTCTTTGCTCATCCG No No No No No 1255b hsa-mir- chr1: 166234526-166234548 3236 CGGATGAGCAAAGAAAGTGGTT Yes No No No No 1255b hsa-mir-7-1* chr9: 85774505-85774527 3237 TATGGCAGACTGTGATTTGTTG Yes Yes Yes Yes Yes hsa-mir- chr9: 130046844-130046866 3238 TAACCAATGTGCAGACTACTGT Yes Yes Yes Yes No 199b-3p hsa-mir-641 chr19: 45480349-45480373 3239 GAGGTGACTCTATCCTATGTCTTT No No No No No hsa-mir- chr17: 26911181-26911203 3240 AACTGGCCTACAAAGTCCCAGT Yes Yes Yes Yes Yes 193a-3p hsa-mir-186* chr1: 71305912-71305934 3241 CCCAAAAAATTCACCTTTGGGC Yes No Yes No Yes hsa-mir-139- chr11: 72003794-72003816 3242 CTGGAGACACGTGCACTGTAGA Yes Yes Yes Yes Yes 5p hsa-mir-671- chr7: 150566467-150566490 3243 AGGAAGCCCTGGAGGGGCTGGAG Yes Yes Yes Yes Yes 5p hsa-mir-582- chr5: 59035212-59035234 3244 GGTTCAGTTGTTCAACCAGTTA Yes Yes No No No 3p hsa-mir- chr17: 62898117-62898139 3245 GGCAAAAACCACAATTACTTTT Yes No No No No 548d-5p hsa-mir- chr8: 124429505-124429527 3246 GGCAAAAACCACAATTACTTTT No No No No No 548d-5p hsa-mir- chr22: 20337604-20337625 3247 ACTCTTTCCCTGTTGCACTAC Yes Yes Yes Yes Yes 130b* hsa-let-7f-1* chr9: 95978511.95978533 3248 CTATACAATCTATTGCCTTCCC Yes Yes Yes Yes Yes hsa-mir-767- chrX: 151312574-151312597 3249 AGAAACCATGGGGTATGAGCAGA No Yes No No No 3p hsa-mir-363 chrX: 133131077-133131099 3250 TACAGATGGATACCGTGCAATT No Yes Yes Yes Yes hsa-mir-32 chr9: 110848372-110848394 3251 TGCAACTTAGTAATGTGCAATA Yes Yes Yes Yes Yes hsa-mir-31 chr9: 21502156-21502177 3252 AGCTATGCCAGCATCTTGCCT Yes Yes Yes Yes Yes hsa-mir-525- chr19: 58892649-58892671 3253 GAAGGCGCTTCCCTTTAGAGCG Yes No No No No 3p hsa-mir-181d chr19: 13846723-13846746 3254 AACATTCATTGTTGTCGGTGGGT Yes Yes Yes Yes Yes hsa-mir-568 chr3: 115518071-115518091 3255 GTGTGTATACATTTATACAT Yes Yes Yes Yes Yes hsa-mir- chr6: 119431961-119431983 3256 GGCCAAAACCACAATTACTTTT No No No No No 548b-5p hsa-mir-559 chr2: 47458332-47458353 3257 TAAAGTAAATATGCACCAAAA Yes No No No No hsa-mir-559 chr2: 47458372-47458393 3258 TTTTGGTGCATATTTACTTTA Yes No No No No hsa-mir-181a chr9: 126494579-126494602 3259 AACATTCAACGCTGTCGGTGAGT Yes Yes Yes Yes Yes hsa-mir-181a chr1: 197094859-197094882 3260 ACTCACCGACAGCGTTGAATGTT Yes Yes Yes Yes Yes hsa-mir-181b chr9: 126495824-126495847 3261 AACATTCATTGCTGTCGGTGGGT Yes Yes Yes Yes Yes hsa-mir-181b chr1: 197094676-197094699 3262 ACCCACCGACAGCAATGAATGTT Yes Yes Yes Yes Yes hsa-mir-181c chr19: 13846538-13846560 3263 AACATTCAACCTGTCGGTGAGT Yes Yes Yes Yes Yes hsa-mir-34b* chr11: 110888884-110888907 3264 TAGGCAGTGTCATTAGCTGATTG Yes Yes No No No hsa-mir-188- chrX: 49654862-49654883 3265 CATCCCTTGCATGGTGGAGGG Yes Yes Yes Yes Yes 5p hsa-mir-367 chr4: 113788481-113788503 3266 TCACCATTGCTAAAGTGCAATT Yes Yes Yes Yes No hsa-mir-365 chr17: 26926609-26926631 3267 TAATGCCCCTAAAAATCCTTAT Yes Yes Yes Yes Yes hsa-mir-365 chr16: 14310697-14310719 3268 TAATGCCCCTAAAAATCCTTAT Yes Yes Yes Yes Yes hsa-mir-449b chr5: 54502290-54502312 3269 GCCAGCTAACAATACACTGCCT Yes Yes Yes No No hsa-mir-29a* chr7: 130212084-130212106 3270 CTGAACACCAAAAGAAATCAGT No Yes Yes Yes Yes hsa-let-7c* chr21: 16834050-16834072 3271 TAGAGTTACACCCTGGGAGTTA Yes Yes Yes Yes Yes hsa-mir-558 chr2: 32610783-32610802 3272 TGAGCTGCTGTACCAAAAT Yes Yes No No No hsa-mir-10a* chr17: 44012224-44012246 3273 TATTCCCCTAGATACGAATTTG Yes Yes Yes Yes Yes hsa-mir- chr19: 58924918-58924940 3274 CTCTAGAGGGAAGCGCTTTCTG Yes No No No No 518e* hsa-mir-561 chr2: 188870523-188870545 3275 CAAAGTTTAAGATCCTTGAAGT Yes No No No No hsa-mir-562 chr2: 232745666-232745686 3276 AAAGTAGCTGTACCATTTGC Yes Yes No No No hsa-mir-563 chr3: 15890332-15890351 3277 AGGTTGACATACGTTTCCC No No No No No hsa-mir-361- chrX: 85045341-85045363 3278 GTACCCCTGGAGATTCTGATAA Yes Yes Yes Yes Yes 5p hsa-mir-566 chr3: 50185777-50185796 3279 GGGCGCCTGTGATCCCAAC Yes No No No No hsa-mir-567 chr3: 113314352-113314375 3280 AGTATGTTCTTCCAGGACAGAAC Yes No No No No hsa-mir-642 chr19: 50870040-50870062 3281 GTCCCTCTCCAAATGTGTCTTG Yes Yes No No No hsa-mir-192* chr11: 64415206-64415228 3282 CTGTGACCTATGGAATTGGCAG Yes Yes Yes Yes No hsa-mir-92a- chr13: 90801578-90801601 3283 AGGTTGGGATCGGTTGCAATGCT Yes No Yes No No 1* hsa-mir-27a* chr19: 13808300-13808322 3284 TGCTCACAAGCAGCTAAGCCCT Yes Yes Yes Yes Yes hsa-mir-564 chr3: 44878398-44878417 3285 AGGCACGGTGTCAGCAGGC Yes No No No No hsa-mir- chrX: 133131903-133131925 3286 GTAAGAAGTGCTTACATTGCAG No No No No No 106a* hsa-mir-26a- chr3: 37985946-37985968 3287 CCTATTCTTGGTTACTTGCACG Yes Yes Yes Yes Yes 1* hsa-mir-498 chr19: 58869295-58869318 3288 TTTCAAGCCAGGGGGCGTTTTTC Yes Yes No No No hsa-mir-454* chr17: 54569970-54569992 3289 GCAGAGACAATATTGATAGGGT Yes Yes No No No hsa-mir-502- chrX: 49665960-49665981 3290 ATCCTTGCTATCTGGGTGCTA Yes Yes Yes No No 5p hsa-mir-218- chr5: 168127750-168127772 3291 CGCGGTGCTTGACAGAACCATG Yes Yes Yes Yes Yes 2* hsa-mir-30c- chr6: 72143387-72143409 3292 AGAGTAAACAGCCTTCTCCCAG Yes Yes Yes Yes Yes 2* hsa-mir- chr19: 58889508-58889530 3293 GAAAGTGCTTCCTTTTAGAGGC Yes Yes No No No 526b* hsa-mir-542- chrX: 133503095-133503118 3294 TCTCGTGACATGATGATCCCCGA No Yes Yes Yes Yes 5p hsa-mir-433 chr14: 100418038-100418060 3295 ATCATGATGGGCTCCTCGGTGT Yes Yes Yes Yes Yes hsa-mir-27a chr19: 13808260-13808281 3296 GCGGAACTTAGCCACTGTGAA Yes Yes Yes Yes Yes hsa-mir-27b chr9: 96887607-96887628 3297 TTCACAGTGGCTAAGTTCTGC Yes Yes Yes Yes Yes hsa-mir-330- chr19: 50834106-50834129 3298 TCTCTGCAGGCCGTGTGCTTTGC Yes Yes Yes No No 3p hsa-mir-431 chr14: 100417115-100417136 3299 TGTCTTGCAGGCCGTCATGCA Yes Yes Yes Yes Yes hsa-mir- chr19: 58902533-58902555 3300 CTCTAGAGGGAAGCACTTTCTG Yes No No No No 520c-5p hsa-mir-708 chr11: 78790768-78790791 3301 CCCAGCTAGATTGTAAGCTCCTT Yes Yes Yes Yes Yes hsa-mir-17* chr13: 90800909-90800931 3302 ACTGCAGTGAAGGCACTTGTAG Yes No Yes No No hsa-mir-1197 chr14: 100561709-100561730 3303 TAGGACACATGGTCTACTTCT Yes Yes Yes Yes Yes hsa-mir- chr8: 105565823-105565845 3304 GGTAAAACTCGCAATTACTTTT No Yes No No No 548a-5p hsa-mir-1248 chr3: 187987157-187987184 3305 ACCTTCTTGTATAAGCACTGTGCTAAA Yes Yes Yes Yes Yes hsa-mir-208b chr14: 22957045-22957067 3306 ACAAACCTTTTGTTCGTCTTAT Yes Yes Yes Yes Yes hsa-mir-208a chr14: 22927650-22927672 3307 ACAAGCTTTTTGCTCGTCTTAT Yes Yes Yes Yes Yes hsa-mir-499- chr20: 33041871-33041892 3308 TTAAGACTTGCAGTGATGTTT Yes Yes Yes Yes Yes 5p hsa-mir-29b- chr7: 130212805-130212829 3309 TCTAAACCACCATATGAAACCAGC Yes Yes Yes Yes Yes 1* hsa-mir-378* chr5: 149092584-149092606 3310 CTCCTGACTCCAGGTCCTGTGT Yes Yes Yes No Yes hsa-mir-16-1* chr13: 49521121-49521143 3311 TCAGCAGCACAGTTAATACTGG Yes Yes Yes No No hsa-mir-338- chr17: 76714281-76714303 3312 CAACAAAATCACTGATGCTGGA Yes Yes Yes Yes Yes 3p hsa-mir-145* chr5: 148790454-148790476 3313 GGATTCCTGGAAATACTGTTCT Yes Yes Yes Yes Yes hsa-mir-337- chr14: 100410642-100410664 3314 CTCCTATATGATGCCTTTCTTC Yes Yes No Yes Yes 3p hsa-mir-593* chr7: 127509163-127509188 3315 AGGCACCAGCCAGGCATTGCTCAGC Yes No No No No hsa-mir-130a chr11: 57165300-57165322 3316 CAGTGCAATGTTAAAAGGGCAT Yes Yes Yes Yes Yes hsa-mir-627 chr15: 40279119-40279141 3317 TCCTCTTTTCTTAGAGACTCAC Yes Yes No No No hsa-mir-892b chrX: 144886417-144886439 3318 TCTACCCAGAAAGGAGCCAGTG Yes Yes No No No hsa-mir-892a chrX: 144885888-144885909 3319 CTACGCAGAAAGGACACAGTG Yes Yes No No No hsa-mir-548n chr7: 34946940-34946962 3320 ACAAAATCCACAATTACTTTTG Yes No No No No hsa-mir-768- chr16: 70349813-70349841 3321 GTCAGCAGTTTGAGTGTCAGCATTGT No Yes No No No 3p GA hsa-mir-630 chr15: 70666671-70666693 3322 AGTATTCTGTACCAGGGAAGGT Yes No No No No hsa-mir-631 chr15: 73433043-73433064 3323 GCTGAGGTCTGGGCCAGGTCT No Yes No No No hsa-mir-1287 chr10: 100145017-100145039 3324 GACTCGAACCACTGATCCAGCA No No No No No hsa-mir-633 chr17: 58375367-58375390 3325 CTAATAGTATCTACCACAATAAA Yes Yes No No No hsa-mir-1281 chr22: 39818494-39818511 3326 TCGCCTCCTCCTCTCCC Yes Yes Yes Yes Yes hsa-mir-635 chr17: 63932246-63932269 3327 GGACATTGTTTCAGTGCCCAAGT Yes No No No No hsa-mir-636 chr17: 72244142-72244165 3328 TGCGGGCGGGACGAGCAAGCACA No No No No No hsa-mir-637 chr19: 3912426-3912450 3329 ACGCAGAGCCCGAAAGCCCCCAGT Yes No No No No hsa-mir-638 chr19: 10690094-10690119 3330 AGGGATCGCGGGCGGGTGGCGGCCT No No No No No hsa-mir-639 chr19: 14501414-14501437 3331 ATCGCTGCGGTTGCGAGCGCTGT No No No No No hsa-mir-1289 chr5: 132791205-132791228 3332 AAAATGCAGATTCCTGGACTCCA Yes Yes No No No hsa-mir-1289 chr20: 33505225-33505248 3333 AAAATGCAGATTCCTGGACTCCA Yes Yes No No No hsa-mir-1288 chr17: 16126096-16126117 3334 TGGACTGCCCTGATCTGGAGA Yes Yes No No No hsa-mir-548j chr22: 25281239-25281261 3335 ACCAAAGACCGCAATTACTTTT No No No No No hsa-mir-518b chr19: 58897852-58897874 3336 CAAAGCGCTCCCCTTTAGAGGT Yes No No No No hsa-let-7c chr21: 16834028-16834050 3337 TGAGGTAGTAGGTTGTATGGTT Yes Yes Yes Yes Yes hsa-let-7a chr22: 44887295-44887317 3338 TGAGGTAGTAGGTTGTATAGTT Yes Yes Yes No No hsa-let-7a chr11: 121522485-121522507 3339 AACTATACAACCTACTACCTCA Yes Yes Yes Yes Yes hsa-let-7a chr9: 95978064-95978086 3340 TGAGGTAGTAGGTTGTATAGTT Yes Yes Yes Yes Yes hsa-let-7f chrX: 53600931-53600953 3341 AACTATACAATCTACTACCTCA Yes Yes Yes Yes Yes hsa-let-7f chr9: 95978455-95978477 3342 TGAGGTAGTAGATTGTATAGTT Yes Yes Yes Yes Yes hsa-let-7g chr3: 52277391-52277413 3343 AACTGTACAAACTACTACCTCA Yes Yes Yes Yes No hsa-let-7d chr9: 95980943-95980965 3344 AGAGGTAGTAGGTTGCATAGTT Yes Yes Yes Yes Yes hsa-let-7e chr19: 56887857-56887879 3345 TGAGGTAGGAGGTTGTATAGTT Yes Yes Yes Yes Yes hsa-mir- chr19: 58956258-58956276 3346 TGCTTCCTTTCAGAGGGT Yes No No No No 516a-3p hsa-mir- chr19: 58951866-58951884 3347 TGCTTCCTTTCAGAGGGT Yes No No No No 516a-3p hsa-let-7i chr12: 61283737-61283759 3348 TGAGGTAGTAGTTTGTGCTGTT Yes Yes Yes Yes Yes hsa-mir-503 chrX: 133508066-133508089 3349 CTGCAGAACTGTTCCCGCTGCTA Yes Yes No No No hsa-mir-494 chr14: 100565770-100565792 3350 TGAAACATACACGGGAAACCTC Yes Yes Yes Yes Yes hsa-mir- chr19: 58890328-58890350 3351 AAAGTGCATCCTTTTAGAGGTT Yes No No No No 519b-3p hsa-mir- chr8: 129130586-129130607 3352 TGGCAGGGAGGCTGGGAGGGG Yes No No No No 1207-5p hsa-let-7b* chr22: 44888288-44888310 3353 CTATACAACCTACTGCCTTCCC Yes Yes Yes Yes Yes hsa-mir- chr1: 197094820-197094842 3354 GGTACAATCAACGGTCGATGGT Yes Yes Yes Yes Yes 181a* hsa-mir-548e chr10: 112738725-112738747 3355 AAAAACTGAGACTACTTTTGCA No No No No No hsa-mir-125b chr21: 16884443-16884465 3356 TCCCTGAGACCCTAACTTGTGA Yes Yes Yes Yes Yes hsa-mir-125b chr11: 121475726-121475748 3357 TCACAAGTTAGGGTCTCAGGGA Yes Yes Yes Yes Yes hsa-mir-9* chr1: 154656769-154656791 3358 ACTTTCGGTTATCTAGCTTTAT Yes Yes Yes Yes Yes hsa-mir-9* chr5: 87998439-87998461 3359 ACTTTCGGTTATCTAGCTTTAT Yes Yes Yes Yes Yes hsa-mir-9* chr15: 87712305-87712327 3360 ATAAAGCTAGATAACCGAAAGT Yes No Yes Yes Yes hsa-mir-301b chr22: 20337313-20337336 3361 CAGTGCAATGATATTGTCAAAGC Yes Yes Yes No No hsa-mir-301a chr17: 54583291-54583314 3362 GCTTTGACAATACTATTGCACTG Yes Yes Yes Yes Yes hsa-mir-98 chrX: 53599984-53600006 3363 AACAATACAACTTACTACCTCA Yes Yes Yes Yes Yes hsa-mir-550* chr7: 30295994-30296016 3364 TGTCTTACTCCCTCAGGCACAT Yes No No No No hsa-mir-550* chr7: 32739177-32739199 3365 TGTCTTACTCCCTCAGGCACAT Yes No No No No hsa-mir-505* chrX: 138834020-138834042 3366 ACATCAATACTTCCTGGCTCCC Yes Yes Yes Yes Yes hsa-mir-142- chr17: 53763604-53763627 3367 TCCATAAAGTAGGAAACACTACA Yes Yes Yes Yes Yes 3p hsa-mir-487a chr14: 100588583-100588605 3368 AATCATACAGGGACATCCAGTT Yes Yes Yes No No hsa-mir-93 chr7: 99529373-99529396 3369 CTACCTGCACGAACAGCACTTTG Yes Yes Yes Yes Yes hsa-mir-95 chr4: 8057938-8057960 3370 TGCTCAATAAATACCCGTTGAA Yes Yes Yes No No hsa-mir-96 chr7: 129201814-129201837 3371 AGCAAAAATGTGCTAGTGCCAAA Yes Yes Yes Yes Yes hsa-mir- chr12: 6943126-6943148 3372 CGTCTTACCCAGCAGTGTTTGG No Yes Yes Yes Yes 200c* hsa-mir-527 chr19: 58949096-58949116 3373 CTGCAAAGGGAAGCCCTTTC Yes No No No No hsa-mir-521 chr19: 58943754-58943776 3374 AACGCACTTCCCTTTAGAGTGT Yes No No No No hsa-mir-521 chr19: 58911712-58911734 3375 AACGCACTTCCCTTTAGAGTGT Yes No No No No hsa-mir-127- chr14: 100419124-100419146 3376 TCGGATCCGTCTGAGCTTGGCT Yes Yes Yes Yes Yes 3p hsa-mir-523 chr19: 58893502-58893525 3377 GAACGCGCTTCCCTATAGAGGGT Yes No No No No hsa-mir-135b chr1: 203684111-203684134 3378 TCACATAGGAATGAAAAGCCATA Yes Yes Yes Yes Yes hsa-mir-135a chr3: 52303325-52303348 3379 TCACATAGGAATAAAAAGCCATA Yes Yes Yes Yes Yes hsa-mir-135a chr12: 96481742-96481765 3380 TATGGCTTTTTATTCCTATGTGA Yes Yes Yes Yes Yes hsa-mir- chr10: 104186266-104186288 3381 TGAGAACTGAATTCCATAGGCT Yes No Yes Yes Yes 146b-5p hsa-mir-509- chrX: 146148871-146148893 3382 CTACCCACAGACGTACCAATCA No No No No No 3p hsa-mir-509- chrX: 146147984-146148006 3383 CTACCCACAGACGTACCAATCA No No No No No 3p hsa-mir-509- chrX: 146149759-146149781 3384 CTACCCACAGACGTACCAATCA No No No No No 3p hsa-mir-33b* chr17: 17657895-17657917 3385 GGGCTGCACTGCCGAGGCACTG Yes Yes Yes No No hsa-mir-744* chr17: 11926007-11926029 3386 CTGTTGCCACTAACCTCAACCT Yes Yes Yes Yes No hsa-mir- chr5: 41511503-41511521 3387 GTCCCTGTTCAGGCGCCA Yes No No No No 1274a hsa-mir-532- chrX: 49654512-49654534 3388 CATGCCTTGAGTGTAGGACCGT Yes Yes Yes Yes No 5p hsa-mir- chr19: 62716222-62716239 3389 TGGCGCCCGAACAGGGA Yes No No No No 1274b hsa-let-7i* chr12: 61283793-61283815 3390 CTGCGCAAGCTACTGCCTTGCT Yes Yes No Yes Yes hsa-mir-132 chr17: 1899972-1899994 3391 CGACCATGGCTGTAGACTGTTA No Yes Yes Yes Yes hsa-mir-20a* chr13: 90801362-90801384 3392 ACTGCATTATGAGCACTTAAAG Yes No Yes No No hsa-mir-23a chr19: 13808408-13808429 3393 GGAAATCCCTGGCAATGTGAT Yes Yes Yes Yes Yes hsa-mir-23b chr9: 96887367-96887388 3394 ATCACATTGCCAGGGATTACC Yes Yes Yes Yes Yes hsa-mir-542- chrX: 133503059-133503081 3395 TTTCAGTTATCAATCTGTCACA No Yes Yes Yes Yes 3p hsa-mir-148b chr12: 53017328-53017350 3396 TCAGTGCATCACAGAACTTTGT Yes Yes Yes Yes Yes hsa-mir-148a chr7: 25956066-25956088 3397 ACAAAGTTCTGTAGTGCACTGA Yes Yes Yes Yes No hsa-mir-886- chr5: 135444086-135444107 3398 AAGGGTCAGTAAGCACCCGCG Yes Yes No No No 3p hsa-mir-24 chr19: 13808102-13808124 3399 CTGTTCCTGCTGAACTGAGCCA Yes Yes Yes Yes Yes hsa-mir-24 chr9: 96888166-96888188 3400 TGGCTCAGTTCAGCAGGAACAG Yes Yes Yes Yes Yes hsa-mir-330- chr19: 50834146-50834168 3401 GCCTAAGACACAGGCCCAGAGA Yes Yes Yes Yes Yes 5p hsa-mir-497* chr17: 6861980-6862002 3402 TCTAACACCACAGTGTGGTTTG Yes Yes No Yes Yes hsa-mir-451 chr17: 24212546-24212568 3403 AACTCAGTAATGGTAACGGTTT Yes Yes Yes Yes Yes hsa-mir-452 chrX: 150878805-150878827 3404 TCAGTTTCCTCTGCAAACAGTT Yes Yes Yes Yes No hsa-mir-340* chr5: 179374924-179374946 3405 GCTATAAAGTAACTGAGACGGA Yes Yes Yes Yes No hsa-mir-454 chr17: 54569929-54569952 3406 ACCCTATAAGCAATATTGCACTA Yes Yes Yes No No hsa-mir-890 chrX: 144883530-144883551 3407 CAACTGATGCCTTTCCAAGTA Yes No No No No hsa-mir- chr1: 203684073-203684095 3408 CCCATGGCTTTTAGCCCTACAT Yes Yes Yes Yes Yes 135b* hsa-mir-875- chr8: 100618200-100618221 3409 CACAACCTCAGTGTTTCCAGG No No No No No 3p hsa-mir-541* chr14: 100600593-100600618 3410 AAAGGATTCTGCTGTCGGTCCCACT No Yes No No No hsa-mir-26a- chr12: 56504669-56504691 3411 GAAACAAGTAATCAAGAATAGG Yes Yes Yes No No 2* hsa-mir- chr4: 113789006-113789028 3412 CAGCAGGTACCCCCATGTTAAA Yes Yes Yes No No 302c* hsa-mir-885- chr3: 10411182-10411204 3413 TATCCACTACACCCCGCTGCCT Yes Yes Yes No No 3p hsa-mir- chrX: 133501889-133501911 3414 TATGGATGCAAAATGATCCCAA Yes Yes No No No 450b-3p hsa-mir-296- chr20: 56826110-56826131 3415 ACAGGATTGAGGGGGGGCCCT Yes Yes No Yes Yes 5p hsa-mir-221* chrX: 45490592-45490614 3416 AAATCTACATTGTATGCCAGGT Yes Yes Yes Yes Yes hsa-mir-100* chr11: 121528157-121528179 3417 CATACCTATAGATACAAGCTTG Yes No No No No hsa-mir- chr4: 113789130-113789152 3418 GAAAGCACTTCCATGTTAAAGT Yes Yes No No No 302b* hsa-mir-487b chr14: 100582594-100582616 3419 AATCGTACAGGGTCATCCACTT Yes Yes Yes Yes Yes hsa-mir-607 chr10: 98578430-98578451 3420 GTTATAGATCTGGATTTGAAC No No No No No hsa-mir-625* chr14: 65007623-65007645 3421 GACTATAGAACTTTCCCCCTCA Yes No No No No hsa-mir-625* chr14: 65007584-65007606 3422 TGAGGGGGAAAGTTCTATAGTC Yes No No No No hsa-mir-141* chr12: 6943536-6943558 3423 CATCTTCCAGTACAGTGTTGGA Yes Yes Yes No No hsa-mir-606 chr10: 76982281-76982302 3424 AAACTACTGAAAATCAAAGAT No No No No No hsa-mir-155* chr21: 25868204-25868226 3425 CTCCTACATATTAGCATTAACA Yes No No No No hsa-mir-146a chr5: 159844956-159844978 3426 TGAGAACTGAATTCCATGGGTT Yes Yes Yes Yes Yes hsa-mir-1183 chr7: 21477247-21477274 3427 CACTGTAGGTGATGGTGAGAGTGGGCA Yes Yes No No No (2) Conservation of seed sequence miRNA identified in B cell libraries and deposited in miRBase database Seq ID Conservation ID Genomic Coordinates No. Sequence Chimp Monkey Dog Mouse Rat CU-1001 chr11: 121522485-121522507 3428 TGAGGTAGTAGGTTGTATAGTT Yes Yes Yes Yes Yes CU-1001 chr9: 95978064-95978086 3429 TGAGGTAGTAGGTTGTATAGTT Yes Yes Yes Yes Yes CU-1003 chr22: 44888234-44888256 3430 TGAGGTAGTAGGTTGTGTGGTT Yes Yes Yes Yes Yes CU-1004 chr9: 95980943-95980965 3431 AGAGGTAGTAGGTTGCATAGTT Yes Yes Yes Yes Yes CU-1005 chr19: 56887857-56887879 3432 TGAGGTAGGAGGTTGTATAGTT Yes Yes Yes Yes Yes CU-1006 chrX: 53600931-53600953 3433 TGAGGTAGTAGATTGTATAGTT Yes Yes Yes Yes Yes CU-1007 chr3: 52277391-52277413 3434 TGAGGTAGTAGTTTGTACAGTT Yes Yes Yes Yes No CU-1008 chr12: 61283737-61283759 3435 TGAGGTAGTAGTTTGTGCTGTT Yes Yes Yes Yes Yes CU-1009 chr1: 65296711-65296733 3436 TACAGTACTGTGATAACTGAAG Yes Yes Yes Yes Yes CU-1009 chr9: 4840344-4840366 3437 TACAGTACTGTGATAACTGAAG Yes Yes Yes Yes Yes CU-1010 chr20: 3846187-3846210 3438 AGCAGCATTGTACAGGGCTATGA Yes Yes Yes Yes Yes CU-1011 chr7: 99529562-99529582 3439 CCGCACTGTGGGTACTTGCT Yes Yes Yes Yes Yes CU-1012 chr7: 99529601-99529622 3440 TAAAGTGCTGACAGTGCAGAT Yes Yes Yes Yes Yes CU-1014 chr19: 56888332-56888356 3441 TCCCTGAGACCCTTTAACCTGTGA Yes Yes Yes Yes Yes CU-1015 chr21: 16884443-16884465 3442 TCCCTGAGACCCTAACTTGTGA Yes Yes Yes Yes Yes CU-1016 chr6: 131417431-131417449 3443 GTCCCTGTTCGGGCGCCA Yes Yes No No No CU-1016 chr19: 62716222-62716240 3444 GTCCCTGTTCGGGCGCCA Yes No No No No CU-1017 chr1: 150066843-150066860 3445 GTGGGGGAGAGGCTGTA Yes No No No No CU-1018 chr7: 35602718-35602735 3446 TCCCACCGCTGCCACCA No No No No No CU-1018 chr2: 72555764-72555781 3447 TCCCACCGCTGCCACCA No No No No No CU-1018 chrX: 55565708-55565725 3448 TCCCACCGCTGCCACCA No No No No No CU-1018 chr1: 225154598-225154615 3449 TCCCACCGCTGCCACCA Yes No No No No CU-1018 chr11: 95714259-95714276 3450 TCCCACCGCTGCCACCA Yes Yes Yes No No CU-1018 chr7: 5368308-5368325 3451 TCCCACCGCTGCCACCA Yes Yes No No No CU-1018 chr6: 140362954-140362971 3452 TCCCACCGCTGCCACCA Yes No No No No CU-1019 chr2: 136139485-136139506 3453 TCACAGTGAACCGGTCTCTTT Yes Yes Yes Yes Yes CU-1021 chr1: 159701881-159701904 3454 GCATGGGTGGTTCAGTGGTAGAA Yes Yes No No No CU-1021 chr1: 159694521-159694544 3455 GCATGGGTGGTTCAGTGGTAGAA Yes Yes No No No CU-1021 chr1: 159687090-159687113 3456 GCATGGGTGGTTCAGTGGTAGAA Yes Yes No No No CU-1021 chr21: 17749025-17749048 3457 GCATGGGTGGTTCAGTGGTAGAA Yes Yes No No No CU-1021 chr1: 159679717-159679740 3458 GCATGGGTGGTTCAGTGGTAGAA No Yes Yes No No CU-1022 chr22: 20337642-20337664 3459 CAGTGCAATGATGAAAGGGCAT Yes Yes Yes Yes Yes CU-1023 chr3: 44130729-44130753 3460 AGCTGGTGTTGTGAATCAGGCCGT No No Yes Yes Yes CU-1024 chr16: 68524545-68524567 3461 TACCACAGGGTAGAACCACGGA Yes Yes Yes Yes Yes CU-1025 chr16: 68524506-68524527 3462 CAGTGGTTTTACCCTATGGTA Yes Yes Yes Yes Yes CU-1026 chr17: 53763604-53763627 3463 TGTAGTGTTTCCTACTTTATGGA Yes Yes Yes Yes Yes CU-1027 chr5: 159844956-159844978 3464 TGAGAACTGAATTCCATGGGTT Yes Yes Yes Yes Yes CU-1028 chr10: 104186266-104186290 3465 TGAGAACTGAATTCCATAGGCTGT Yes No Yes Yes Yes CU-1029 chr19: 54695901-54695922 3466 TCTCCCAACCCTTGTACCAGT Yes Yes Yes Yes Yes CU-1030 chr17: 17715007-17715028 3467 CTAGACTGAAGCTCCTTGAGG Yes Yes No No No CU-1030 chr7: 150838585-150838606 3468 CTAGACTGAAGCTCCTTGAGG Yes No No No No CU-1031 chrX: 53425327-53425349 3469 TCGAGGAGCTCACAGTCTAGTA Yes Yes No No No CU-1031 chr8: 141811902-141811924 3470 TCGAGGAGCTCACAGTCTAGTA Yes Yes Yes No No CU-1032 chr21: 25868165-25868188 3471 TTAATGCTAATCGTGATAGGGGT Yes Yes Yes Yes No CU-1033 chr13: 49521304-49521325 3472 TAGCAGCACATAATGGTTTGT Yes Yes Yes Yes No CU-1033 chr7: 3516339-3516360 3473 TAGCAGCACATAATGGTTTGT Yes Yes No No No CU-1034 chr3: 161605126-161605147 3474 CGAATCATTATTTGCTGCTCT Yes Yes Yes Yes Yes CU-1035 chr3: 161605088-161605110 3475 TAGCAGCACATCATGGTTTACA Yes Yes Yes Yes Yes CU-1037 chr3: 161605235-161605257 3476 TAGCAGCACGTAAATATTGGCG Yes Yes Yes Yes Yes CU-1037 chr13: 49521163-49521185 3477 TAGCAGCACGTAAATATTGGCG Yes Yes Yes Yes No CU-1038 chr13: 90800909-90800931 3478 ACTGCAGTGAAGGCACTTGTAG Yes No Yes Yes Yes CU-1039 chr13: 90800872-90800895 3479 CAAAGTGCTTACAGTGCAGGTAG Yes Yes Yes Yes Yes CU-1040 chr1: 197094822-197094842 3480 ACCATCGACCGTTGATTGTA Yes Yes Yes Yes Yes CU-1042 chr9: 126494579-126494603 3481 AACATTCAACGCTGTCGGTGAGTT Yes Yes Yes Yes Yes CU-1042 chr1: 197094858-197094882 3482 AACATTCAACGCTGTCGGTGAGTT Yes Yes Yes Yes Yes CU-1044 chr13: 90801051-90801073 3483 ACTGCCCTAAGTGCTCCTTCTG Yes No Yes Yes Yes CU-1045 chr13: 90801010-90801032 3484 TAAGGTGCATCTAGTGCAGATA Yes Yes Yes Yes Yes CU-1046 chr3: 49033108-49033131 3485 CAACGGAATCCCAAAAGCAGCTG Yes Yes Yes Yes Yes CU-1047 chr11: 64415251-64415271 3486 CTGACCTATGAATTGACAGC Yes Yes Yes Yes Yes CU-1050 chr16: 14305374-14305396 3487 AACTGGCCCTCAAAGTCCCGCT Yes Yes Yes Yes No CU-1052 chr17: 6861708-6861730 3488 TAGCAGCACAGAAATATTGGCA Yes Yes Yes Yes Yes CU-1053 chr1: 109943084-109943105 3489 TTCACCACCTTCTCCACCCAG Yes Yes Yes No No CU-1054 chr1: 170380354-170380377 3490 CCCAGTGTTCAGACTACCTGTTC Yes Yes Yes Yes Yes CU-1054 chr19: 10789144-10789167 3491 CCCAGTGTTCAGACTACCTGTTC Yes Yes Yes Yes No CU-1055 chr19: 10789105-10789126 3492 ACAGTAGTCTGCACATTGGTT Yes Yes Yes Yes Yes CU-1055 chr1: 170380317-170380338 3493 ACAGTAGTCTGCACATTGGTT Yes Yes Yes Yes Yes CU-1055 chr9: 130046845-130046866 3494 ACAGTAGTCTGCACATTGGTT Yes Yes Yes Yes No CU-1056 chr13: 90801193-90801216 3495 TGTGCAAATCTATGCAAAACTGA Yes No Yes Yes Yes CU-1057 chrX: 133131378-133131401 3496 TGTGCAAATCCATGCAAAACTGA Yes Yes Yes Yes Yes CU-1057 chr13: 90801499-90801522 3497 TGTGCAAATCCATGCAAAACTGA Yes Yes Yes Yes Yes CU-1061 chr13: 90801326-90801349 3498 TAAAGTGCTTATAGTGCAGGTAG Yes Yes Yes Yes Yes CU-1062 chrX: 133131545-133131568 3499 CAAAGTGCTTATAGTGCAGGTAG Yes Yes Yes Yes Yes CU-1064 chr17: 55273415-55273437 3500 TAGCTTATCAGACTGATGTTGA Yes Yes Yes Yes Yes CU-5016 chr3: 49032634-49032658 3501 AATGACACGATCACTCCCGTTGAG Yes Yes Yes Yes Yes CU-1065 chrX: 45490553-45490574 3502 AGCTACATTGTCTGCTGGGTT Yes Yes Yes Yes Yes CU-1066 chrX: 45491383-45491406 3503 AGCTACATCTGGCTACTGGGTCT No Yes Yes Yes Yes CU-1067 chrX: 65155503-65155525 3504 TGTCAGTTTGTCAAATACCCCA Yes Yes Yes Yes Yes CU-1068 chr19: 13808407-13808429 3505 ATCACATTGCCAGGGATTTCCA Yes Yes Yes Yes Yes CU-1069 chr9: 96887367-96887389 3506 ATCACATTGCCAGGGATTACCA Yes Yes Yes Yes Yes CU-1071 chr7: 99529129-99529151 3507 CATTGCACTTGTCTCGGTCTGA Yes Yes Yes Yes Yes CU-1072 chr12: 56504707-56504729 3508 TTCAAGTAATCCAGGATAGGCT Yes Yes Yes Yes Yes CU-1072 chr3: 37985907-37985929 3509 TTCAAGTAATCCAGGATAGGCT Yes Yes Yes Yes Yes CU-1073 chr2: 218975623-218975645 3510 TTCAAGTAATTCAGGATAGGTT Yes Yes Yes Yes Yes CU-1075 chr9: 96887607-96887627 3511 TTCACAGTGGCTAAGTTCTG Yes Yes Yes Yes Yes CU-1076 chr3: 189889315-189889337 3512 CACTAGATTGTGAGCTCCTGGA Yes Yes Yes Yes Yes CU-1077 chr3: 189889275-189889297 3513 AAGGAGCTCACAGTCTATTGAG Yes Yes Yes Yes Yes CU-1079 chr7: 130212046-130212068 3514 TAGCACCATCTGAAATCGGTTA Yes Yes Yes Yes Yes CU-1080 chr1: 206042417-206042440 3515 TAGCACCATTTGAAATCAGTGTT Yes Yes Yes Yes Yes CU-1081 chr1: 206041871-206041892 3516 TGACCGATTTCTCCTGGTGTT Yes Yes Yes Yes Yes CU-1082 chr1: 206041832-206041854 3517 TAGCACCATTTGAAATCGGTTA Yes Yes Yes Yes Yes CU-1083 chr6: 72170020-72170040 3518 TGTAAACATCCTCGACTGGA Yes Yes Yes Yes Yes CU-1084 chr8: 135881994-135882016 3519 TGTAAACATCCTACACTCAGCT Yes Yes Yes Yes Yes CU-1085 chr1: 40995558-40995581 3520 TGTAAACATCCTACACTCTCAGC Yes Yes Yes Yes Yes CU-1086 chr8: 135886343-135886365 3521 TGTAAACATCCCCGACTGGAAG Yes Yes Yes Yes Yes CU-1087 chr1: 40992629-40992653 3522 TGTAAACATCCTTGACTGGAAGCT Yes Yes Yes Yes Yes CU-1088 chr8: 22158432-22158448 3523 TGGGTTGAGAGGGCGA Yes Yes Yes Yes Yes CU-1089 chr16: 65793734-65793752 3524 CTGGCCCTCTCTGCCCTT Yes No Yes Yes Yes CU-1091 chr12: 94226386-94226407 3525 GCCCCTGGGCCTATCCTAGAA Yes Yes Yes Yes Yes CU-1092 chr7: 1029154-1029174 3526 TCCCTGTCCTCCAGGAGCTC Yes Yes Yes Yes No CU-1092 chr10: 22978473-22978493 3527 TCCCTGTCCTCCAGGAGCTC Yes Yes No No No CU-1093 chr14: 99645804-99645828 3528 TCTCACACAGAAATCGCACCCGTC Yes Yes Yes Yes Yes CU-1094 chr14: 99645763-99645783 3529 GGGGTGCTATCTGTGATTGA Yes Yes Yes Yes Yes CU-1095 chr1: 9134379-9134402 3530 TGGCAGTGTCTTAGCTGGTTGTT Yes Yes Yes Yes Yes CU-1096 chrX: 85045302-85045324 3531 TCCCCCAGGTGTGATTCTGATT Yes Yes Yes Yes Yes CU-1098 chr17: 26926609-26926631 3532 TAATGCCCCTAAAAATCCTTAT Yes Yes Yes Yes Yes CU-1098 chr16: 14310697-14310719 3533 TAATGCCCCTAAAAATCCTTAT Yes Yes Yes Yes Yes CU-1099 chr5: 149092584-149092605 3534 CTCCTGACTCCAGGTCCTGTG Yes Yes Yes No Yes CU-1100 chr17: 25468274-25468296 3535 AGCTCGGTCTGAGGCCCCTCAG Yes Yes Yes Yes Yes CU-1101 chr17: 25468238-25468260 3536 TGAGGGGCAGAGAGCGAGACTT Yes Yes Yes Yes Yes CU-1103 chr8: 41637118-41637140 3537 TCCTGTACTGAGCTGCCCCGAG Yes Yes Yes Yes Yes CU-1104 chr17: 6862021-6862042 3538 CAGCAGCACACTGTGGTTTGT Yes Yes Yes Yes Yes CU-1105 chrX: 138833988-138834006 3539 CGTCAACACTTGCTGGTT Yes Yes Yes Yes Yes CU-1106 chr4: 38546107-38546128 3540 CACGCTCATGCACACACCCAC No No Yes Yes No CU-1108 chr14: 65007623-65007643 3541 AGGGGGAAAGTTCTATAGTC Yes No No No No CU-1108 chr14: 65007586-65007606 3542 AGGGGGAAAGTTCTATAGTC Yes No No No No CU-1110 chr15: 68158819-68158840 3543 TGGGTTTACGTTGGGAGAACT No No No No No CU-1111 chr9: 85774506-85774527 3544 CAACAAATCACAGTCTGCCAT Yes Yes Yes Yes Yes CU-1113 chr9: 85774546-85774569 3545 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes Yes Yes CU-1113 chr15: 86956090-86956113 3546 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes Yes Yes CU-1113 chr19: 4721711-4721734 3547 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes Yes Yes CU-1115 chr13: 90801578-90801601 3548 AGGTTGGGATCGGTTGCAATGCT Yes No Yes No No CU-1116 chrX: 133131239-133131261 3549 TATTGCACTTGTCCCGGCCTGT Yes Yes Yes Yes Yes CU-1116 chr13: 90801615-90801637 3550 TATTGCACTTGTCCCGGCCTGT Yes Yes Yes Yes Yes CU-1117 chr1: 153431651-153431670 3551 TATTGCACTCGTCCCGGCC No Yes Yes Yes Yes CU-1118 chr7: 99529373-99529396 3552 CAAAGTGCTGTTCGTGCAGGTAG Yes Yes Yes Yes Yes CU-1119 chrX: 53599984-53600006 3553 TGAGGTAGTAAGTTGTATTGTT Yes Yes Yes Yes Yes CU-1124 chr17: 53763644-53763665 3554 CCCATAAAGTAGAAAGCACTA Yes Yes Yes Yes Yes CU-1125 chr3: 161605277-161605298 3555 ACCAATATTACTGTGCTGCTT Yes Yes Yes Yes Yes CU-1126 chr9: 126495825-126495848 3556 ACATTCATTGCTGTCGGTGGGTT Yes Yes Yes Yes Yes CU-1126 chr1: 197094675-197094698 3557 ACATTCATTGCTGTCGGTGGGTT Yes Yes Yes Yes Yes CU-1568 chr21: 16834028-16834046 3558 TGAGGTAGTAGGTTGTAT Yes Yes Yes Yes Yes CU-5001 chr9: 95980997-95981018 3559 CTATACGACCTGCTGCCTTTC Yes Yes Yes Yes Yes CU-5002 chr3: 49032596-49032618 3560 CATCGGGAATGTCGTGTCCGCC Yes Yes Yes Yes Yes new miRNA identified in B cell libraries Seq ID Conservation ID Genomic Coordinates No. Sequence Chimp Monkey Dog Mouse Rat CU-1130 chr4: 84650562-84650579 3561 CCCGGGTTTCGGCACCA Yes No No No No CU-1130 chr7: 152741807-152741824 3562 CCCGGGTTTCGGCACCA No No No No No CU-1132 chr12: 123990125-123990145 3563 GCCGGGTACTTTCGTATTTT No No No No No CU-1137 chr17: 8030990-8031016 3564 GCTAAGGAAGTCCTGTGCTCAGTTTT Yes No No No No CU-1142 chr5: 180625271-180625293 3565 TCGATTCCCGGCCCATGCACCA No No No No No CU-1142 chr21: 17748974-17748996 3566 TCGATTCCCGGCCCATGCACCA Yes No No No No CU-1142 chr1: 159687142-159687164 3567 TCGATTCCCGGCCCATGCACCA Yes Yes No No No CU-1142 chr1: 159701933-159701955 3568 TCGATTCCCGGCCCATGCACCA Yes Yes No No No CU-1142 chr1: 159679769-159679791 3569 TCGATTCCCGGCCCATGCACCA No Yes Yes No No CU-1142 chr1: 159694573-159694595 3570 TCGATTCCCGGCCCATGCACCA Yes Yes No No No CU-1146 chr16: 3142975-3142992 3571 AGAAAGGCCGAATTTTA Yes No No No No CU-1148 chr10: 5935660-5935679 3572 TGGTGTGGTCTGTTGTTTT Yes No No No No CU-1153 chr14: 22388241-22388268 3573 CCCCCCACTGCTAAATTTGACTGGCTT Yes Yes No No No CU-1153 chr17: 35653067-35653094 3574 CCCCCCACTGCTAAATTTGACTGGCTT Yes No No No No CU-1155 chr20: 58490320-58490337 3575 TCCCCGCACCTCCACCA Yes Yes No No No CU-1164 chr6: 29057409-29057426 3576 GAGAGCGCTCGGTTTTT Yes No No No No CU-1173 chr18: 1681856-1681874 3577 ATCCCACTCCTGACACCA Yes No No No No CU-1175 chr11: 59075015-59075034 3578 GGCGTGATTCATACCTTTT Yes No No No No CU-1178 chr6: 28723944-28723961 3579 AGGGTGTGCGTGTTTTT Yes No No No No CU-1180 chr19: 38359877-38359905 3580 AACCGAGCGTCCAAGCTCTTTCCATTTT Yes Yes No No No CU-1186 chr18: 73990174-73990192 3581 TCCCCGACACCTCCACCA No No No No No CU-1191 chr12: 46439968-46439985 3582 GCCCGCATCCTCCACCA Yes No No No No CU-1197 chr15: 38673296-38673314 3583 ATGTGGTGGCTTACTTTT Yes No No No No CU-1212 chr20: 60596937-60596955 3584 TCCCCGGCACTTCCACCA No No No No No CU-1213 chr3: 73875819-73875836 3585 TCACCCCATAAACACCA Yes Yes Yes No No CU-1220 chr1: 159706825-159706843 3586 TTCCCCGACGGGGAGCCA Yes Yes No No No CU-1220 chr1: 159692034-159692052 3587 TTCCCCGACGGGGAGCCA Yes Yes No No No CU-1220 chr1: 159677235-159677253 3588 TTCCCCGACGGGGAGCCA Yes Yes Yes No No CU-1220 chr1: 159699444-159699462 3589 TTCCCCGACGGGGAGCCA Yes Yes No No No CU-1220 chr1: 159684653-159684671 3590 TTCCCCGACGGGGAGCCA Yes Yes No No No CU-1221 chr17: 34564245-34564268 3591 TGTGCTCCGGAGTTACCTCGTTT No No No No No CU-1222 chrX: 70920902-70920919 3592 TCACGTCGGGGTCACCA Yes No No No No CU-1241 chr2: 167308360-167308379 3593 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr1: 29814092-29814111 3594 AGTCCCATCTGGGTCGCCA Yes Yes No No No CU-1241 chrX: 51239676-51239695 3595 AGTCCCATCTGGGTCGCCA Yes Yes No No No CU-1241 chr13: 22997399-22997418 3596 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr6: 70235237-70235256 3597 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr6: 141377023-141377042 3598 AGTCCCATCTGGGTCGCCA Yes Yes No No No CU-1241 chr16: 21555749-21555768 3599 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr3: 97152533-97152552 3600 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chrX: 70638471-70638490 3601 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr2: 47181625-47181644 3602 AGTCCCATCTGGGTCGCCA No No No No No CU-1241 chr3: 114548556-114548575 3603 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr8: 107870541-107870560 3604 AGTCCCATCTGGGTCGCCA No Yes No No No CU-1241 chr10: 118251348-118251367 3605 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr13: 110648656-110648675 3606 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1241 chr1: 74982888-74982907 3607 AGTCCCATCTGGGTCGCCA No Yes No No No CU-1241 chr1: 74982864-74982883 3608 AGTCCCATCTGGGTCGCCA No Yes No No No CU-1241 chrX: 120113204-120113223 3609 AGTCCCATCTGGGTCGCCA Yes No No No No CU-1242 chr7: 148897373-148897391 3610 TCCCCGTACGGGCCACCA Yes No No No No CU-1242 chr6: 159071498-159071516 3611 TCCCCGTACGGGCCACCA Yes No No No No CU-1243 chr1: 173342843-173342861 3612 GTCCCTTCGTGGTCGCCA No No No No No CU-1243 chr19: 55148120-55148138 3613 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chrX: 117299486-117299504 3614 GTCCCTTCGTGGTCGCCA No No No No No CU-1243 chr8: 4429174-4429192 3615 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chr11: 84485385-84485403 3616 GTCCCTTCGTGGTCGCCA Yes Yes No No No CU-1243 chr21: 26073725-26073743 3617 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chr5: 77142069-77142087 3618 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chr19: 8350798-8350816 3619 GTCCCTTCGTGGTCGCCA Yes No No No No CU-1243 chr12: 20827096-20827114 3620 GTCCCTTCGTGGTCGCCA No No No No No CU-1244 chr1: 159766817-159766838 3621 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 159700155-159700176 3622 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 159677946-159677967 3623 GTCAGGATGGCCGAGCGGTCT Yes Yes Yes No No CU-1244 chr1: 159685364-159685385 3624 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr16: 55891954-55891975 3625 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 159692745-159692766 3626 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 159707536-159707557 3627 GTCAGGATGGCCGAGCGGTCT Yes Yes No No No CU-1244 chr1: 240532967-240532988 3628 GTCAGGATGGCCGAGCGGTCT Yes No No No No CU-1246 chr14: 65014334-65014351 3629 AGGGGGGTAAAAAAAAA Yes No No No No CU-1246 chr14: 93614119-93614136 3630 AGGGGGGTAAAAAAAAA Yes No No No No CU-1251 chr12: 31408926-31408943 3631 CCCACCCAGGGACGCCA No No No No No CU-1251 chr17: 34161556-34161573 3632 CCCACCCAGGGACGCCA Yes Yes Yes No No CU-1251 chr1: 146614798-146614815 3633 CCCACCCAGGGACGCCA Yes No No No No CU-1251 chr19: 33728787-33728804 3634 CCCACCCAGGGACGCCA Yes No No No No CU-1251 chr9: 136463072-136463089 3635 CCCACCCAGGGACGCCA Yes No No No No CU-1254 chr4: 2032401-2032419 3636 TCCCCGGCACCTCCACCA No Yes No No No CU-1264 chr3: 37897506-37897524 3637 GAGGGGGACCAAAAAAAA Yes Yes No No No CU-1269 chr17: 21946878-21946897 3638 TACCGAGCCTGGTGATAGC No No No No No CU-1269 chr11: 102785624-102785643 3639 TACCGAGCCTGGTGATAGC Yes No No No No CU-1276 chr17: 7969840-7969862 3640 TCGATTCCCGGCCAATGCACCA No Yes Yes No Yes CU-1276 chr19: 39807750-39807772 3641 TCGATTCCCGGCCAATGCACCA No No No No No CU-1277 chr1: 153990335-153990358 3642 GAGCCATGATGATACCACTGAGC Yes No No No No CU-1278 chr5: 79981714-79981731 3643 TAACGGCCGCGGTACCC Yes Yes No No No CU-1278 chr3: 97818860-97818877 3644 TAACGGCCGCGGTACCC Yes Yes No No No CU-1281 chr1: 173235999-173236022 3645 GCAGCGCCAGCCTCCCGCCCTAC Yes No No No No CU-1288 chr19: 54685975-54685994 3646 CGTCCATGATGTTCCGCAA No No No No No CU-1293 chr2: 38390703-38390730 3647 AGCAGTGATGTCCTGAAAATTCTGAAG No No No No No CU-1294 chr5: 79983107-79983127 3648 AAAGGACCTGGCGGTGCTTC Yes No No No No CU-1294 chr11: 10487796-10487816 3649 AAAGGACCTGGCGGTGCTTC Yes No No No No CU-1294 chr13: 108874524-108874544 3650 AAAGGACCTGGCGGTGCTTC Yes No No No No CU-1298 chr16: 3178151-3178169 3651 ATCCCGGACGAGCCCCCA Yes No No No No CU-1298 chr22: 44955360-44955378 3652 ATCCCGGACGAGCCCCCA Yes No No No No CU-1298 chr11: 49720969-49720987 3653 ATCCCGGACGAGCCCCCA Yes Yes No No No CU-1298 chr16: 3174130-3174148 3654 ATCCCGGACGAGCCCCCA Yes No No No No CU-1298 chr11: 75624513-75624531 3655 ATCCCGGACGAGCCCCCA Yes No Yes No No CU-1300 chr6: 101499628-101499646 3656 TCCTCACACGGGGCACCA Yes Yes No No No CU-1300 chr7: 106814117-106814135 3657 TCCTCACACGGGGCACCA Yes Yes No No No CU-1303 chr4: 151694303-151694321 3658 ATCCCACTTCTGACACCA Yes Yes No No No CU-1303 chr1: 212585032-212585050 3659 ATCCCACTTCTGACACCA Yes No No No No CU-1303 chr3: 194813519-194813537 3660 ATCCCACTTCTGACACCA Yes No No No No CU-1303 chr2: 55018611-55018629 3661 ATCCCACTTCTGACACCA Yes Yes No No No CU-1303 chr5: 143373194-143373212 3662 ATCCCACTTCTGACACCA No Yes No No No CU-1303 chr1: 36261536-36261554 3663 ATCCCACTTCTGACACCA Yes No No No No CU-1303 chr12: 67663402-67663420 3664 ATCCCACTTCTGACACCA Yes Yes No No No CU-1303 chr4: 119344866-119344884 3665 ATCCCACTTCTGACACCA No Yes No No No CU-1303 chr12: 70175143-70175161 3666 ATCCCACTTCTGACACCA Yes Yes No No No CU-1307 chr1: 9557438-9557458 3667 ACCCCACTATGCTTAGCCCT Yes Yes No Yes Yes CU-1323 chr2: 232028754-232028771 3668 TGTATTGTGAGACATTC Yes No No No No CU-1324 chr4: 3167100-3167117 3669 TCTCGGTGGAACCTCCA Yes No No No No CU-1324 chr15: 63948450-63948467 3670 TCTCGGTGGAACCTCCA No No No No No CU-1339 chr8: 141129909-141129928 3671 ATCCCCAGCACCTCCACCA Yes Yes No No No CU-1345 chr11: 10487827-10487845 3672 AGAACACTACGAGCCACA Yes No No No No CU-1345 chr5: 79983138-79983156 3673 AGAACACTACGAGCCACA Yes No No No No CU-1345 chr13: 108874555-108874573 3674 AGAACACTACGAGCCACA Yes No No No No CU-1352 chr12: 12693348-12693366 3675 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr5: 119090314-119090332 3676 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr14: 56457992-56458010 3677 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr7: 7637279-7637297 3678 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr1: 34288353-34288371 3679 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr1: 107581087-107581105 3680 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr7: 66011743-66011761 3681 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr7: 119683539-119683557 3682 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr18: 16775205-16775223 3683 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr2: 6916389-6916407 3684 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr6: 98788231-98788249 3685 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr1: 201394394-201394412 3686 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chrX: 85448496-85448514 3687 ACCCCACTTCTGGTACCA No Yes No No No CU-1352 chr8: 140073141-140073159 3688 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr12: 8391052-8391070 3689 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chrX: 77289492-77289510 3690 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr2: 116637798-116637816 3691 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr4: 72493755-72493773 3692 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr15: 94045767-94045785 3693 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chrX: 85947724-85947742 3694 ACCCCACTTCTGGTACCA No Yes No No No CU-1352 chr20: 60081974-60081992 3695 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr18: 31113119-31113137 3696 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr11: 8446114-8446132 3697 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr6: 140796063-140796081 3698 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr22: 19662967-19662985 3699 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chrX: 116622706-116622724 3700 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr22: 43646515-43646533 3701 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr11: 3516223-3516241 3702 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr10: 123734159-123734177 3703 ACCCCACTTCTGGTACCA No No No No No CU-1352 chr18: 120806-120824 3704 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr1: 174219317-174219335 3705 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1352 chr7: 156114211-156114229 3706 ACCCCACTTCTGGTACCA Yes No No No No CU-1352 chr3: 107173811-107173829 3707 ACCCCACTTCTGGTACCA Yes Yes No No No CU-1363 chr1: 17095207-17095225 3708 CGTTCGCGCTTTCCCCTG Yes Yes No No No CU-1363 chr1: 147460729-147460747 3709 CGTTCGCGCTTTCCCCTG No Yes No No No CU-1363 chr14: 34085816-34085834 3710 CGTTCGCGCTTTCCCCTG Yes Yes No No No CU-1363 chr14: 34095182-34095200 3711 CGTTCGCGCTTTCCCCTG Yes Yes No No No CU-1368 chr6: 27173063-27173081 3712 GACGAGGTGGCCGAGTGG Yes Yes Yes No No CU-1368 chr6: 28288793-28288811 3713 GACGAGGTGGCCGAGTGG Yes Yes No No No CU-1368 chr11: 65872166-65872184 3714 GACGAGGTGGCCGAGTGG Yes Yes Yes Yes Yes CU-1368 chr15: 38673378-38673396 3715 GACGAGGTGGCCGAGTGG Yes Yes Yes No Yes CU-1368 chr6: 27373753-27373771 3716 GACGAGGTGGCCGAGTGG Yes Yes No No No CU-1368 chr2: 228333400-228333418 3717 GACGAGGTGGCCGAGTGG Yes No No No No CU-1368 chr6: 28673159-28673177 3718 GACGAGGTGGCCGAGTGG Yes Yes No No No CU-1368 chr17: 8030908-8030926 3719 GACGAGGTGGCCGAGTGG Yes Yes No No Yes CU-1369 chr15: 94627153-94627171 3720 TCCCCGGCATCTCCACCA No No No No No CU-1370 chr1: 232795752-232795772 3721 CTGATTGCTCCTGTCTGATT No Yes No No No CU-1371 chr13: 108874496-108874517 3722 TCTAGAGGAGCCTGTTCTGTA Yes No Yes Yes No CU-1379 chr1: 165950616-165950638 3723 TCGGGTGCGAGAGGTCCCGGGT Yes Yes Yes Yes Yes CU-1380 chr11: 10488308-10488331 3724 ATAGGTTTGGTCCTAGCCTTTCT Yes No No No No CU-1381 chr1: 169836691-169836713 3725 TCGATTCCCGGTCAGGGAACCA No No No No No CU-1382 chr6: 27555431-27555459 3726 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr1: 159677282-159677310 3727 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes Yes No No CU-1382 chr17: 8066324-8066352 3728 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr1: 159699491-159699519 3729 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr1: 159692081-159692109 3730 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr6: 27579501-27579529 3731 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr1: 159684700-159684728 3732 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr12: 123990189-123990217 3733 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1382 chr12: 94953929-94953957 3734 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes Yes Yes No CU-1382 chr12: 123977887-123977915 3735 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes No No No No CU-1382 chr1: 159706872-159706900 3736 TCCTCGTTAGTATAGTGGTGAGTATCCC Yes Yes No No No CU-1388 chr1: 144110633-144110661 3737 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 159698476-159698504 3738 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 159705856-159705884 3739 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 159683685-159683713 3740 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 247135069-247135097 3741 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr1: 159691065-159691093 3742 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No No No CU-1388 chr6: 126143129-126143157 3743 TCCCTGGTGGTCTAGTGGTTAGGATTCG Yes Yes No Yes Yes CU-1396 chr1: 556086-556103 3744 TAAGTGTTTGTGGGTTA No No No No No CU-1403 chr17: 7969788-7969810 3745 GCATTGGTGGTTCAGTGGTAGA No Yes Yes No Yes CU-1403 chr16: 69370491-69370513 3746 GCATTGGTGGTTCAGTGGTAGA Yes Yes Yes No No CU-1403 chr1: 17061002-17061024 3747 GCATTGGTGGTTCAGTGGTAGA No No Yes No No CU-1403 chr3: 15524502-15524524 3748 GCATTGGTGGTTCAGTGGTAGA Yes No No No No CU-1403 chr16: 69380097-69380119 3749 GCATTGGTGGTTCAGTGGTAGA Yes Yes Yes Yes Yes CU-1403 chr1: 227740226-227740248 3750 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1403 chr1: 16745069-16745091 3751 GCATTGGTGGTTCAGTGGTAGA Yes No Yes No No CU-1403 chr1: 159760309-159760331 3752 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1403 chr2: 156965953-156965975 3753 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1403 chrX: 64154569-64154591 3754 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1403 chr6: 27978713-27978735 3755 GCATTGGTGGTTCAGTGGTAGA Yes Yes No No No CU-1440 chr5: 180533270-180533287 3756 TGGTTATCACGTTCGCC Yes Yes No No No CU-1440 chr5: 180456690-180456707 3757 TGGTTATCACGTTCGCC Yes Yes No No No CU-1440 chr6: 27281886-27281903 3758 TGGTTATCACGTTCGCC Yes Yes No No No CU-1440 chr1: 147565219-147565236 3759 TGGTTATCACGTTCGCC Yes Yes No No No CU-1440 chr5: 180461899-180461916 3760 TGGTTATCACGTTCGCC Yes Yes No No No CU-1453 chr3: 191522810-191522827 3761 CCCTGCTCGCTGCGCCA Yes Yes No No No CU-1457 chr7: 43102939-43102961 3762 TTCTCACTACTGCACTTGACTA Yes No No No No CU-1457 chr14: 67153778-67153800 3763 TTCTCACTACTGCACTTGACTA Yes No No No No CU-1457 chr1: 238571371-238571393 3764 TTCTCACTACTGCACTTGACTA Yes Yes No No No CU-1457 chr2: 147946177-147946199 3765 TTCTCACTACTGCACTTGACTA Yes Yes No No No CU-1470 chr16: 30675216-30675234 3766 CTCCTGGCTGGCTCGCCA Yes Yes No No No CU-1470 chr14: 43074235-43074253 3767 CTCCTGGCTGGCTCGCCA Yes No No No No CU-1477 chr17: 26124435-26124459 3768 CTCCCACTGCTTCACTTGACTAGC No Yes No No No CU-1477 chr17: 27331095-27331119 3769 CTCCCACTGCTTCACTTGACTAGC Yes Yes No No No CU-1477 chr10: 21810723-21810747 3770 CTCCCACTGCTTCACTTGACTAGC Yes No No No No CU-1477 chr14: 99119179-99119203 3771 CTCCCACTGCTTCACTTGACTAGC Yes Yes No No No CU-1477 chr11: 107460922-107460946 3772 CTCCCACTGCTTCACTTGACTAGC Yes Yes No No No CU-1477 chr4: 154407515-154407539 3773 CTCCCACTGCTTCACTTGACTAGC Yes Yes No No No CU-1486 chr17: 59577172-59577189 3774 CTGCTGTGATGACATTC Yes Yes No No No CU-1488 chr1: 4671944-4671961 3775 TCCTGCCGCGGTCGCCA Yes Yes No No No CU-1513 chr17: 59577217-59577244 3776 GCGGGTGATGCGAACTGGAGTCTGAGC Yes No Yes No No CU-1524 chr7: 148269562-148269586 3777 CCCCCACAACCGCGCTTGACTAGC Yes Yes Yes No No CU-1528 chr17: 8066916-8066935 3778 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr6: 27167511-27167530 3779 TAGGGGTATGATTCTCGCT Yes Yes Yes No No CU-1528 chr14: 20222026-20222045 3780 TAGGGGTATGATTCTCGCT Yes Yes No Yes Yes CU-1528 chr14: 20151440-20151459 3781 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr6: 26663488-26663507 3782 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr16: 3172676-3172695 3783 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr14: 20147375-20147394 3784 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr5: 180548500-180548519 3785 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr16: 3148935-3148954 3786 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr16: 3179646-3179665 3787 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr4: 18668214-18668233 3788 TAGGGGTATGATTCTCGCT Yes No No No No CU-1528 chr1: 165950597-165950616 3789 TAGGGGTATGATTCTCGCT Yes Yes Yes No Yes CU-1528 chr16: 3182001-3182020 3790 TAGGGGTATGATTCTCGCT Yes No No No No CU-1528 chr11: 75624216-75624235 3791 TAGGGGTATGATTCTCGCT Yes Yes Yes No No CU-1528 chr16: 3162061-3162080 3792 TAGGGGTATGATTCTCGCT Yes Yes No No No CU-1528 chr7: 128210751-128210770 3793 TAGGGGTATGATTCTCGCT Yes Yes Yes Yes Yes CU-1538 chrX: 16840335-16840361 3794 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No No No No CU-1538 chr13: 98986625-98986651 3795 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes Yes No No No CU-1538 chr10: 128599365-128599391 3796 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes Yes No No No CU-1538 chr7: 148311779-148311805 3797 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No Yes No No CU-1538 chr15: 73062744-73062770 3798 GGCTGGTCCGAGTGCAGTGGTGTTTA No No No No No CU-1538 chrX: 116932310-116932336 3799 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes Yes No No No CU-1538 chr11: 47705094-47705120 3800 GGCTGGTCCGAGTGCAGTGGTGTTTA Yes No No No No CU-1542 chr7: 148291339-148291362 3801 GGCTGGTCCGATGGTAGTGGGTT Yes Yes Yes No No CU-1542 chr6: 33275355-33275378 3802 GGCTGGTCCGATGGTAGTGGGTT Yes Yes No No No CU-1545 chr17: 19031996-19032016 3803 CCACGAGGAAGAGAGGTAGC No No No No No CU-1550 chr6: 26438546-26438564 3804 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1550 chr6: 27853657-27853675 3805 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1550 chr6: 26421369-26421387 3806 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1550 chr6: 27408781-27408799 3807 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1550 chr6: 27668617-27668635 3808 CGGAAGCGTGCTGGGCCC Yes Yes No No No CU-1557 chr17: 19033934-19033957 3809 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1557 chr17: 18907957-18907980 3810 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1557 chr17: 19032115-19032138 3811 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1557 chr17: 18956457-18956480 3812 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1557 chr17: 18906143-18906166 3813 GGAGAGAACGCGGTCTGAGTGGT Yes No No No No CU-1570 chr17: 36922634-36922653 3814 ATCCCCAGCATCTCCACCA Yes No No No No CU-1575 chr7: 148291405-148291430 3815 CCCCCCACTGCTAAATTTGACTGGA Yes Yes Yes No No miRNA deposited in miRBase database Seq ID Conservation ID Genomic Coordinates No. Sequence Chimp Monkey Dog Mouse Rat hsa-mir-1322 chr8: 10720294-10720313 3816 CAGCATCAGCAGCATCATC Yes No No No No hsa-mir-1323 chr19: 58867043-58867065 3817 TCAAAACTGAGGGGCATTTTCT Yes Yes No No No hsa-mir-1321 chrX: 84977492-84977510 3818 CAGGGAGGTGAATGTGAT Yes No No No No hsa-mir-29c* chr1: 206041870-206041892 3819 GAACACCAGGAGAAATCGGTCA Yes Yes Yes Yes Yes hsa-mir-1324 chr3: 75762663-75762687 3820 CCAGACAGAATTCTATGCACTTTC No No No No No hsa-mir-675 chr11: 1974605-1974628 3821 CACTGTGGGCCCTCTCCGCACCA No Yes Yes Yes Yes hsa-mir-183* chr7: 129202003-129202025 3822 TTATGGCCCTTCGGTAATTCAC Yes Yes Yes Yes Yes hsa-mir-335* chr7: 129923238-129923260 3823 TTTTTCATTATTGCTCCTGACC Yes Yes Yes Yes No hsa-mir-19a* chr13: 90801158-90801180 3824 AGTTTTGCATAGTTGCACTACA Yes No Yes Yes Yes hsa-mir-132* chr17: 1900008-1900030 3825 AGTAACAATCGAAAGCCACGGT No Yes Yes Yes Yes hsa-mir-182 chr7: 129197522-129197546 3826 AGTGTGAGTTCTACCATTGCCAAA Yes Yes Yes Yes Yes hsa-mir-122 chr18: 54269299-54269321 3827 TGGAGTGTGACAATGGTGTTTG Yes Yes Yes Yes Yes hsa-mir-16-2* chr3: 161605278-161605300 3828 CCAATATTACTGTGCTGCTTTA Yes Yes Yes Yes Yes hsa-mir-124 chr8: 65454320-65454340 3829 TAAGGCACGCGGTGAATGCC Yes Yes Yes Yes Yes hsa-mir-124 chr8: 9798320-9798340 3830 GGCATTCACCGCGTGCCTTA No Yes Yes Yes Yes hsa-mir-124 chr20: 61280348-61280368 3831 TAAGGCACGCGGTGAATGCC No Yes Yes Yes Yes hsa-mir-126 chr9: 138684925-138684947 3832 TCGTACCGTGAGTAATAATGCG Yes Yes Yes Yes Yes hsa-mir-31* chr9: 21502119-21502141 3833 ATGGCAATATGTTGGCATAGCA Yes Yes Yes Yes Yes hsa-mir-128 chr2: 136139485-136139506 3834 TCACAGTGAACCGGTCTCTTT Yes Yes Yes Yes Yes hsa-mir-128 chr3: 35761022-35761043 3835 TCACAGTGAACCGGTCTCTTT Yes Yes Yes Yes Yes hsa-mir-19a chr13: 90801193-90801216 3836 TGTGCAAATCTATGCAAAACTGA Yes No Yes Yes Yes hsa-mir-524-5p chr19: 58906082-58906104 3837 CTACAAAGGGAAGCACTTTCTC Yes Yes No No No hsa-mir-19b chrX: 133131378-133131401 3838 TCAGTTTTGCATGGATTTGCACA Yes Yes Yes Yes Yes hsa-mir-19b chr13: 90801499-90801522 3839 TGTGCAAATCCATGCAAAACTGA Yes Yes Yes Yes Yes hsa-mir-148b* chr12: 53017290-53017312 3840 AAGTTCTGTTATACACTCAGGC Yes Yes Yes Yes Yes hsa-mir-1257 chr20: 59962071-59962092 3841 GGTCAGAACCCATCATTCACT No No No No No hsa-mir-1254 chr10: 70189097-70189121 3842 AGCCTGGAAGCTGGAGCCTGCAGT Yes Yes No No No hsa-mir-455-3p chr9: 116011587-116011608 3843 GCAGTCCATGGGCATATACAC Yes Yes Yes Yes Yes hsa-mir-1253 chr17: 2598182-2598203 3844 TGCAGGCTGATCTTCTTCTCT Yes No No No No hsa-mir-1250 chr17: 76721659-76721680 3845 AAAGGCCACATCCAGCACCGT Yes Yes No No No hsa-mir-1251 chr12: 96409821-96409842 3846 ACTCTAGCTGCCAAAGGCGCT Yes Yes Yes Yes Yes hsa-mir-1258 chr2: 180433852-180433873 3847 AGTTAGGATTAGGTCGTGGAA Yes Yes No No No hsa-mir-1258 chr2: 180433816-180433837 3848 TTCCACGACCTAATCCTAACT Yes Yes No No No hsa-mir-1259 chr20: 47330268-47330289 3849 ATATATGATGACTTAGCTTTT Yes Yes No No No hsa-mir-1207-3p chr8: 129130630-129130648 3850 TCAGCTGGCCCTCATTTC Yes Yes No Yes No hsa-mir-34c-3p chr11: 110889418-110889440 3851 AATCACTAACCACACGGCCAGG Yes Yes Yes Yes Yes hsa-mir-489 chr7: 92951194-92951216 3852 GCTGCCGTATATGTGATGTCAC Yes Yes Yes No Yes hsa-mir-488 chr1: 175265132-175265153 3853 GACCAAGAAATAGCCTTTCAA Yes Yes Yes Yes Yes hsa-mir-556-5p chr1: 160578974-160578996 3854 GATGAGCTCATTGTAATATGAG Yes No No No No hsa-mir-484 chr16: 15644658-15644680 3855 TCAGGCTCAGTCCCCTCCCGAT Yes Yes No Yes Yes hsa-mir-523* chr19: 58893465-58893487 3856 CTCTAGAGGGAAGCGCTTTCTG Yes No No No No hsa-mir-125b-1* chr11: 121475686-121475708 3857 AGCTCCCAAGAGCCTAACCCGT Yes Yes Yes Yes Yes hsa-mir-7-2* chr15: 86956130-86956152 3858 CAACAAATCCCAGTCTACCTAA Yes Yes No No No hsa-mir-569 chr3: 172307161-172307182 3859 ACTTTCCAGGATTCATTAACT Yes Yes Yes No No hsa-mir-574-5p chr4: 38546071-38546094 3860 TGAGTGTGTGTGTGTGAGTGTGT No No Yes Yes No hsa-mir-342-5p chr14: 99645762-99645783 3861 AGGGGTGCTATCTGTGATTGA Yes Yes Yes Yes Yes hsa-mir-379 chr14: 100558160-100558181 3862 TGGTAGACTATGGAACGTAGG Yes Yes Yes Yes Yes hsa-mir-520b chr19: 58896332-58896353 3863 AAAGTGCTTCCTTTTAGAGGG Yes Yes No No No hsa-mir-520e chr19: 58870829-58870850 3864 AAAGTGCTTCCTTTTTGAGGG Yes No No No No hsa-mir-371-5p chr19: 58985745-58982765 3865 ACTCAAACTGTGGGGGCACT Yes Yes Yes No Yes hsa-mir-520g chr19: 58917285-58917309 3866 ACAAAGTGCTTCCCTTTAGAGTGT Yes Yes No No No hsa-mir-520f chr19: 58877278-58877300 3867 AAGTGCTTCCTTTTAGAGGGTT Yes No No No No hsa-mir-520h chr19: 58937631-58937653 3868 ACAAAGTGCTTCCCTTTAGAGT Yes No No No No hsa-mir-219-5p chr9: 130194775-130194796 3869 AGAATTGCGTTTGGACAATCA Yes Yes Yes Yes Yes hsa-mir-219-5p chr6: 33263609-33283630 3870 TGATTGTCCAAACGCAATTCT Yes Yes Yes Yes Yes hsa-mir-140-5p chr16: 68524506-68524528 3871 CAGTGGTTTTACCCTATGGTAG Yes Yes Yes Yes Yes hsa-mir-423-5p chr17: 25468238-25468261 3872 TGAGGGGCAGAGAGCGAGACTTT Yes Yes Yes Yes Yes hsa-mir-30b* chr8: 135881956-135881978 3873 GAAGTAAACATCCACCTCCCAG Yes Yes Yes No No hsa-mir-195 chr17: 6861709-6861730 3874 GCCAATATTTCTGTGCTGCTA Yes Yes Yes Yes Yes hsa-mir-194 chr11: 64415451-64415473 3875 TCCACATGGAGTTGCTGTTACA Yes Yes Yes Yes Yes hsa-mir-194 chr1: 218358170-218358192 3876 TCCACATGGAGTTGCTGTTACA Yes Yes Yes Yes Yes hsa-mir-197 chr1: 109943084-109943106 3877 TTCACCACCTTCTCCACCCAGC Yes Yes Yes No No hsa-mir-191 chr3: 49033108-49033131 3878 CAGCTGCTTTTGGGATTCCGTTG Yes Yes Yes Yes Yes hsa-mir-190 chr15: 60903222-60903244 3879 TGATATGTTTGATATATTAGGT Yes Yes Yes Yes Yes hsa-mir-192 chr11: 64415250-64415271 3880 GGCTGTCAATTCATAGGTCAG Yes Yes Yes Yes Yes hsa-mir-449a chr5: 54502170-54502192 3881 ACCAGCTAACAATACACTGCCA Yes Yes Yes Yes Yes hsa-mir-339-3p chr7: 1029116-1029139 3882 CGGCTCTGTCGTCGAGGCGCTCA Yes Yes No Yes Yes hsa-mir-508-5p chrX: 146126189-146126212 3883 CATGAGTGACGCCCTCTGGAGTA Yes Yes No No No hsa-mir-1284 chr3: 71673879-71673901 3884 GAAAAGCCAGGGTCTGTATAGA Yes No No Yes Yes hsa-mir-362-5p chrX: 49660315-49660339 3885 AATCCTTGGAACCTAGGTGTGAGT Yes Yes Yes Yes Yes hsa-mir-125a-3p chr19: 56888370-56888392 3886 ACAGGTGAGGTTCTTGGGAGCC Yes Yes Yes Yes Yes hsa-mir-34a* chr1: 9134338-9134360 3887 AGGGCAGTATACTTGCTGATTG Yes Yes Yes Yes Yes hsa-mir-373 chr19: 58983813-58983836 3888 GAAGTGCTTCGATTTTGGGGTGT Yes Yes Yes No No hsa-mir-502-3p chrX: 49665996-49666018 3889 AATGCACCTGGGCAAGGATTCA Yes Yes Yes Yes Yes hsa-mir-200b chr1: 1092402-1092424 3890 TAATACTGCCTGGTAATGATGA No No Yes Yes Yes hsa-mir-200c chr12: 6943165-6943188 3891 TAATACTGCCGGGTAATGATGGA Yes Yes Yes Yes Yes hsa-mir-200a chr1: 1093158-1093180 3892 TAACACTGTCTGGTAACGATGT Yes Yes Yes Yes Yes hsa-mir-410 chr14: 100602050-100602071 3893 AATATAACACAGATGGCCTGT Yes Yes Yes Yes Yes hsa-mir-411 chr14: 100559429-100559450 3894 TAGTAGACCGTATAGCGTACG Yes Yes Yes Yes Yes hsa-mir-412 chr14: 100601589-100601612 3895 ACTTCACCTGGTCCACTAGCCGT Yes Yes No Yes Yes hsa-mir-555 chr1: 153582779-153582800 3896 ATCAGAGGTTCAGCTTACCCT Yes Yes No Yes No hsa-mir-554 chr1: 149784910-149784931 3897 GCTAGTCCTGACTCAGCCAGT Yes Yes No No No hsa-mir-493* chr14: 100405164-100405186 3898 TTGTACATGGTAGGCTTTCATT No Yes Yes Yes Yes hsa-mir-550 chr7: 30295955-30295978 3899 AGTGCCTGAGGGAGTAAGAGCCC Yes Yes No No No hsa-mir-550 chr7: 32739138-32739161 3900 AGTGCCTGAGGGAGTAAGAGCCC Yes Yes No No No hsa-mir-553 chr1: 100519399-100519420 3901 AAAACGGTGAGATTTTGTTTT Yes No No No No hsa-mir-193a-5p chr17: 26911147-26911169 3902 TGGGTCTTTGCGGGCGAGATGA Yes Yes Yes Yes Yes hsa-mir-876-3p chr9: 28853633-28853655 3903 TGAATTACTTTGTAAACCACCA Yes Yes Yes Yes Yes hsa-mir-139-3p chr11: 72003757-72003779 3904 ACTCCAACAGGGCCGCGTCTCC Yes Yes Yes Yes Yes hsa-mir-30a chr6: 72170018-72170040 3905 CTTCCAGTCGAGGATGTTTACA Yes Yes Yes Yes Yes hsa-mir-30b chr8: 135881994-135882016 3906 AGCTGAGTGTAGGATGTTTACA Yes Yes Yes Yes Yes hsa-mir-30c chr1: 40995558-40995581 3907 TGTAAACATCCTACACTCTCAGC Yes Yes Yes Yes Yes hsa-mir-30c chr6: 72143426-72143449 3908 GCTGAGAGTGTAGGATGTTTACA Yes Yes Yes Yes Yes hsa-mir-30d chr8: 135886343-135886365 3909 CTTCCAGTCGGGGATGTTTACA Yes Yes Yes Yes Yes hsa-mir-30e chr1: 40992629-40992651 3910 TGTAAACATCCTTGACTGGAAG Yes Yes Yes Yes Yes hsa-mir-374b* chrX: 73355116-73355138 3911 AATGATAATACAACCTGCTAAG Yes Yes Yes Yes Yes hsa-mir-548b-3p chr6: 119431925-119431947 3912 ACAAAAGCAACTGAGGTTCTTG Yes No No No No hsa-mir-515-5p chr19: 58874081-58874105 3913 TTCTCCAAAAGAAAGCACTTTCTG Yes Yes No No No hsa-mir-515-5p chr19: 58880087-58880111 3914 TTCTCCAAAAGAAAGCACTTTCTG Yes Yes No No No hsa-mir-429 chr1: 1094297-1094319 3915 TAATACTGTCTGGTAAAACCGT No Yes Yes Yes Yes hsa-mir-486-5p chr8: 41637118-41637140 3916 TCCTGTACTGAGCTGCCCCGAG Yes Yes Yes Yes Yes hsa-mir-486-5p chr8: 41637158-41637180 3917 CTCGGGGCAGCTCAGTACAGGA Yes Yes Yes Yes Yes hsa-mir-1206 chr8: 129090328-129090349 3918 TGTTCATGTAGATGTTTAAGC Yes Yes No No No hsa-mir-99a chr21: 16833291-16833313 3919 AACCCGTAGATCCGATCTTGTG Yes Yes Yes Yes Yes hsa-mir-188-3p chrX: 49654901-49654922 3920 CTCCCACATGCAGGGTTTGCA Yes Yes Yes Yes Yes hsa-mir-99b chr19: 56887682-56887704 3921 CACCCGTAGAACCGACCTTGCG Yes Yes Yes Yes Yes hsa-mir-300 chr14: 100577503-100577525 3922 TATACAAGGGCAGACTCTCTCT Yes No No No No hsa-mir-193b chr16: 14305374-14305396 3923 AACTGGCCCTCAAAGTCCCGCT Yes Yes Yes Yes No hsa-mir-1203 chr17: 43588846-43588867 3924 GAGCTGCATCCTGGCTCCGGG Yes Yes No No No hsa-mir-30c-1* chr1: 40995597-40995619 3925 CTGGGAGAGGGTTGTTTACTCC Yes Yes Yes Yes Yes hsa-mir-19b-2* chrX: 133131422-133131444 3926 TGAAATGCAAACCTGCAAAACT Yes Yes Yes Yes Yes hsa-mir-1286 chr22: 18616667-18616688 3927 AGGGCTCATCTTGGTCCTGCA Yes No No No No hsa-let-7g* chr3: 52277335-52277356 3928 GCAAGGCAGTGGCCTGTACAG Yes Yes Yes Yes No hsa-mir-361-3p chrX: 85045301-85045324 3929 AAATCAGAATCACACCTGGGGGA Yes Yes Yes Yes Yes hsa-mir-518a-5p chr19: 58926084-58926104 3930 CTGCAAAGGGAAGCCCTTTC Yes No No No No hsa-mir-518a-5p chr19: 58934413-58934433 3931 CTGCAAAGGGAAGCCCTTTC Yes No No No No hsa-mir-604 chr10: 29873953-29873972 3932 GTCCTGAATTCCGCAGCCT Yes Yes No No No hsa-mir-485-5p chr14: 100591516-100591538 3933 AGAGGCTGGCCGTGATGAATTC Yes Yes Yes Yes Yes hsa-mir-452* chrX: 150878761-150878783 3934 CACTTACTTCTTTGCAGATGAG Yes Yes Yes No No hsa-mir-450b-5p chrX: 133501926-133501948 3935 TATTCAGGAACATATTGCAAAA Yes Yes Yes No No hsa-mir-505 chrX: 138833984-138834006 3936 AGGAAACCAGCAAGTGTTGACG Yes Yes Yes Yes Yes hsa-mir-299-5p chr14: 100559889-100559911 3937 TGGTTTACCGTCCCACATACAT Yes Yes Yes Yes Yes hsa-mir-181a-2* chr9: 126494617-126494639 3938 ACCACTGACCGTTGACTGTACC Yes Yes Yes No No hsa-mir-29b-2* chr1: 206042459-206042481 3939 CTAAGCCACCATGTGAAACCAG Yes Yes Yes Yes Yes hsa-mir-323-3p chr14: 100561871-100561892 3940 CACATTACACGGTCGACCTCT Yes Yes Yes Yes Yes hsa-mir-1256 chr1: 21187456-21187478 3941 AGCTAGTGAGAAGTCAATGCCT Yes Yes No No No hsa-mir-144* chr17: 24212726-24212748 3942 CTTACAGTATATGATGATATCC Yes Yes Yes Yes Yes hsa-mir-1280 chr3: 129563701-129563718 3943 TCCCACCGCTGCCACCC Yes Yes No No No hsa-mir-379* chr14: 100558198-100558220 3944 TATGTAACATGGTCCACTAACT Yes Yes Yes Yes Yes hsa-mir-1252 chr12: 78337171-78337193 3945 AGAAGGAAATTGAATTCATTTA Yes Yes No No No hsa-mir-324-5p chr17: 7067384-7067407 3946 ACACCAATGCCCTAGGGGATGCG Yes Yes Yes Yes Yes hsa-mir-516b* chr19: 58920562-58920580 3947 TGCTTCCTTTCAGAGGGT Yes No No No No hsa-mir-516b* chr19: 58931970-58931988 3948 TGCTTCCTTTCAGAGGGT Yes Yes No No No hsa-mir-18b chrX: 133131779-133131802 3949 CTAACTGCACTAGATGCACCTTA Yes Yes Yes Yes Yes hsa-mir-17 chr13: 90800872-90800895 3950 CAAAGTGCTTACAGTGCAGGTAG Yes Yes Yes Yes Yes hsa-mir-16 chr3: 161605235-161605257 3951 TAGCAGCACGTAAATATTGGCG Yes Yes Yes Yes Yes hsa-mir-16 chr13: 49521163-49521185 3952 CGCCAATATTTACGTGCTGCTA Yes Yes Yes Yes No hsa-mir-26b* chr2: 218975658-218975680 3953 CCTGTTCTCCATTACTTGGCTC Yes Yes Yes Yes Yes hsa-mir-618 chr12: 79853705-79853728 3954 ACTCAGAAGGACAAGTAGAGTTT Yes Yes No No No hsa-mir-331-3p chr12: 94226386-94226407 3955 GCCCCTGGGCCTATCCTAGAA Yes Yes Yes Yes Yes hsa-mir-605 chr10: 52729353-52729376 3956 TAAATCCCATGGTGCCTTCTCCT Yes No No No No hsa-mir-376a chr14: 100576914-100576935 3957 ATCATAGAGGAAAATCCACGT Yes Yes Yes No No hsa-mir-376a chr14: 100576207-100576228 3858 ATCATAGAGGAAAATCCACGT Yes Yes Yes No Yes hsa-mir-376b chr14: 100576586-100576608 3959 ATCATAGAGGAAAATCCATGTT Yes Yes Yes Yes Yes hsa-mir-376c chr14: 100575821-100575842 3960 ATCATAGAGGAAATTCCACGT Yes Yes Yes Yes Yes hsa-mir-601 chr9: 125204666-125204688 3961 CTCCTCCAACAATCCTAGACCA Yes Yes No No No hsa-mir-600 chr9: 124913660-124913683 3962 GAGCAAGGCTCTTGTCTGTAAGT Yes Yes No No No hsa-mir-603 chr10: 24604679-24604701 3963 CACACACTGCAATTACTTTTGC No Yes No No No hsa-mir-602 chr9: 139852706-139852729 3964 GACACGGGCGACAGCTGCGGCCC Yes No No No No hsa-mir-609 chr10: 105968596-105968616 3965 AGAGATGAGAGAAACACCCT Yes Yes No No No hsa-mir-608 chr10: 102724746-102724771 3966 AGGGGTGGTGTTGGGACAGCTCCGT Yes No No No No hsa-mir-551b* chr3: 169752356-169752378 3967 GAAATCAAGCGTGGGTGAGACC Yes Yes Yes Yes Yes hsa-mir-544 chr14: 100584801-100584823 3968 ATTCTGCATTTTTAGCAAGTTC Yes Yes Yes Yes No hsa-mir-664* chr1: 218440550-218440574 3969 ATCCAATCATTTTCCCTAGCCGT Yes Yes Yes No No hsa-mir-409-5p chr14: 100601403-100601426 3970 AGGTTACCCGAGCAACTTTGCAT Yes Yes Yes Yes Yes hsa-mir-136* chr14: 100420839-100420861 3971 CATCATCGTCTCAAATGAGTCT Yes Yes Yes Yes Yes hsa-mir-1282 chr15: 41873221-41873241 3972 AAGCAGAAAAAGGCAAACGA Yes Yes Yes Yes Yes hsa-mir-519c-5p chr19: 58881549-58881571 3973 CTCTAGAGGGAAGCGCTTTCTG Yes No No No No hsa-mir-1208 chr8: 129231554-129231574 3974 TCACTGTTCAGACAGGCGGA Yes Yes No Yes Yes hsa-mir-1205 chr8: 129042067-129042087 3975 TCTGCAGGGTTTGCTTTGAG Yes No No Yes Yes hsa-mir-663b chr2: 132731012-132731034 3976 CCTCAGGCACGGCCGGGCCACC Yes No No No No hsa-mir-1201 chr14: 19864455-19864479 3977 TCAGAGCATGTGTTTAATCAGGCT Yes Yes Yes No No hsa-mir-1200 chr7: 36925532-36925554 3978 GAGGCTCAGAATGGCTCAGGAG Yes No No No No hsa-mir-338-5p chr17: 76714317-76714339 3979 CACTCAGCACCAGGATATTGTT Yes Yes Yes Yes Yes hsa-mir-1202 chr6: 156309634-156309655 3980 GTGCCAGCTGCAGTGGGGGAG Yes Yes No No No hsa-mir-501-5p chrX: 49661082-49661104 3981 AATCCTTTGTCCCTGGGTGAGA Yes Yes No Yes Yes hsa-mir-519b-5p chr19: 58890290-58890312 3982 CTCTAGAGGGAAGCGCTTTCTG Yes Yes No No No hsa-mir-101* chr1: 65296747-65296769 3983 AGCATCAGCACTGTGATAACTG Yes Yes Yes Yes Yes hsa-mir-511 chr10: 17927127-17927148 3984 GTGTCTTTTGCTCTGCAGTCA Yes Yes Yes No No hsa-mir-511 chr10: 18174056-18174077 3985 GTGTCTTTTGCTCTGCAGTCA Yes Yes Yes No No hsa-mir-510 chrX: 146161587-146161609 3986 GTGATTGCCACTCTCCTGAGTA Yes Yes Yes No No hsa-let-7a* chr9: 95978115-95978136 3987 CTATACAATCTACTGTCTTTC Yes Yes Yes Yes Yes hsa-let-7a* chr22: 44887343-44887364 3988 CTATACAATCTACTGTCTTTC Yes Yes Yes Yes Yes hsa-mir-514 chrX: 146173864-146173885 3989 TCTACTCACAGAAGTGTCAAT Yes Yes No No No hsa-mir-514 chrX: 146171166-146171187 3990 TCTACTCACAGAAGTGTCAAT Yes Yes Yes No No hsa-mir-514 chrX: 146168475-146168496 3991 TCTACTCACAGAAGTGTCAAT Yes No Yes No No hsa-mir-524-3p chr19: 58906119-58906140 3992 GAAGGCGCTTCCCTTTGGAGT Yes No No No No hsa-mir-491-5p chr9: 20706118-20706140 3993 AGTGGGGACCCTTCCATGAGG Yes Yes Yes Yes No hsa-mir-18b* chrX: 133131737-133131759 3994 GCCAGAAGGGGCATTTAGGGCA Yes Yes Yes Yes Yes hsa-mir-411* chr14: 100559464-100559486 3995 TATGTAACACGGTCCACTAACC Yes Yes Yes Yes Yes hsa-mir-548d-3p chr8: 124429469-124429491 3996 GCAAAAGAAACTGTGGTTTTTG No Yes No No No hsa-mir-548d-3p chr17: 62898081-62898103 3997 GCAAAAGAAACTGTGGTTTTTG No No No No No hsa-mir-490-3p chr7: 136238528-136238550 3998 CAACCTGGAGGACTCCATGGCTG Yes Yes Yes Yes Yes hsa-mir-576-3p chr4: 110629356-110629378 3999 AAGATGTGGAAAAATTGGAATC Yes Yes No No No hsa-mir-34a chr1: 9134380-9134402 4000 ACAACCAGCTAAGACACTGCCA Yes Yes Yes Yes Yes hsa-mir-34b chr11: 110888921-110888943 4001 CAATCACTAACTCCACTGCCAT Yes Yes Yes Yes Yes hsa-mir-654-5p chr14: 100576323-100576345 4002 TGGTGGGCCGCAGAACATGTGC Yes Yes No No No hsa-mir-216a chr2: 56069658-56069680 4003 TCACAGTTGCCAGCTGAGATTA Yes Yes Yes Yes Yes hsa-mir-216b chr2: 56081402-56081424 4004 TCACATTTGCCTGCAGAGATTT Yes Yes Yes Yes Yes hsa-mir-590-3p chr7: 73243518-73243539 4005 TAATTTTATGTATAAGCTAGT Yes Yes Yes No Yes hsa-mir-939 chr8: 145590215-145590239 4006 CACCCCCAGAGCCTCAGCTCCCCA Yes Yes No No No hsa-mir-938 chr10: 29931245-29931267 4007 ACTGGGTTCACCTTTAAGGGCA Yes No No No No hsa-mir-34c-5p chr11: 110889385-110889408 4008 AGGCAGTGTAGTTAGCTGATTGC Yes Yes Yes Yes Yes hsa-mir-15a* chr13: 49521266-49521288 4009 TGAGGCAGCACAATATGGCCTG Yes Yes Yes Yes No hsa-mir-933 chr2: 175740615-175740637 4010 GGGAGAGGTCTCCCTGCGCACA Yes Yes No No No hsa-mir-499-3p chr20: 33041908-33041930 4011 AACATCACAGCAAGTCTGTGCT Yes Yes Yes Yes Yes hsa-mir-937 chr8: 144967128-144967150 4012 GGCAGAGAGTCAGAGCGCGGAT Yes No No No No hsa-mir-936 chr10: 105797898-105797920 4013 CTGCGATTCCTCCCTCTACTGT Yes Yes No No No hsa-mir-935 chr19: 59177427-59177450 4014 CCAGTTACCGCTTCCGCTACCGC Yes No No No Yes hsa-mir-654-3p chr14: 100576358-100576380 4015 TATGTCTGCTGACCATCACCTT Yes Yes Yes Yes No hsa-mir-93* chr7: 99529335-99529357 4016 CGGGAAGTGCTAGCTCAGCAGT Yes Yes Yes Yes Yes hsa-mir-516b chr19: 58920522-58920544 4017 ATCTGGAGGTAAGAAGCACTTT Yes No No No No hsa-mir-516b chr19: 58931925-58931947 4018 ATCTGGAGGTAAGAAGCACTTT Yes Yes No No No hsa-mir-551a chr1: 3467133-3467154 4019 TGGAAACCAAGAGTGGGTCGC Yes Yes Yes No No hsa-mir-551b chr3: 169752395-169752416 4020 GCGACCCATACTTGGTTTCAG Yes Yes Yes Yes Yes hsa-mir-345 chr14: 99843965-99843987 4021 GCTGACTCCTAGTCCAGGGCTC Yes No Yes No No hsa-mir-346 chr10: 88014483-88014506 4022 AGAGGCAGGCATGCGGGCAGACA Yes Yes Yes Yes Yes hsa-mir-340 chr5: 179374966-179374988 4023 AATCAGTCTCATTGCTTTATAA Yes Yes Yes Yes No hsa-mir-106a chrX: 133131939-133131962 4024 CTACCTGCACTGTAAGCACTTTT Yes Yes Yes Yes Yes hsa-mir-23b* chr9: 96887329-96887351 4025 TGGGTTCCTGGCATGCTGATTT Yes Yes Yes Yes Yes hsa-mir-106b chr7: 99529601-99529622 4026 ATCTGCACTGTCAGCACTTTA Yes Yes Yes Yes Yes hsa-mir-194* chr11: 64415415-64415437 4027 CAGATAACAGCAGCCCCACTGG Yes Yes Yes Yes Yes hsa-mir-519a* chr19: 58947476-58947498 4028 CTCTAGAGGGAAGCGCTTTCTG Yes No No No No hsa-mir-519e chr19: 58875056-58875078 4029 AAGTGCCTCCTTTTAGAGTGTT Yes No No No No hsa-mir-519d chr19: 58908465-58908487 4030 CAAAGTGCCTCCCTTTAGAGTG Yes Yes No No No hsa-mir-769-3p chr19: 51214097-51214120 4031 CTGGGATCTCCGGGGTCTTGGTT No No Yes No No hsa-mir-519a chr19: 58947514-58947536 4032 AAAGTGCATCCTTTTAGAGTGT Yes Yes No No No hsa-mir-519a chr19: 58957465-58957484 4033 AAAGTGCATCCTTTTAGAGTGT Yes Yes No No No hsa-mir-943 chr4: 1957927-1957948 4034 CTGGAGGACGGCAACAGTCAG Yes No No No No hsa-mir-940 chr16: 2261807-2261828 4035 AAGGCAGGGCCCCCGCTCCCC Yes Yes Yes No No hsa-mir-941 chr20: 62021710-62021733 4036 CACCCGGCTGTGTGCACATGTGC Yes No No No No hsa-mir-941 chr20: 62021598-62021621 4037 CACCCGGCTGTGTGCACATGTGC Yes No No No No hsa-mir-941 chr20: 62021291-62021314 4038 CACCCGGCTGTGTGCACATGTGC Yes No No No No hsa-mir-423-3p chr17: 25468274-25468297 4039 AGCTCGGTCTGAGGCCCCTCAGT Yes Yes Yes Yes Yes hsa-mir-203 chr14: 103653558-103653580 4040 GTGAAATGTTTAGGACCACTAG Yes Yes Yes Yes Yes hsa-mir-202 chr10: 134911032-134911052 4041 TTCCCATGCCCTATACCTCT Yes No Yes Yes Yes hsa-mir-205 chr1: 207672133-207672155 4042 TCCTTCATTCCACCGGAGTCTG Yes Yes Yes Yes Yes hsa-mir-204 chr9: 72614766-72614788 4043 AGGCATAGGATGACAAAGGGAA Yes Yes Yes Yes Yes hsa-mir-526a chr19: 58921993-58922015 4044 CTCTAGAGGGAAGCACTTTCTG Yes No No No No hsa-mir-526a chr19: 58901331-58901353 4045 CTCTAGAGGGAAGCACTTTCTG Yes No No No No hsa-mir-28-3p chr3: 189889315-189889337 4046 CACTAGATTGTGAGCTCCTGGA Yes Yes Yes Yes Yes hsa-mir-302a* chr4: 113788828-113788851 4047 AGCAAGTACATCCACGTTTAAGT Yes Yes Yes Yes Yes hsa-mir-548c-3p chr12: 63302615-63302637 4048 CAAAAATCTCAATTACTTTTGC Yes Yes No No No hsa-mir-424* chrX: 133508339-133508360 4049 ATAGCAGCGCCTCACGTTTTG Yes Yes Yes No No hsa-mir-886-5p chr5: 135444163-135444186 4050 CCGCTTGAGCTAACTCCGACCCG Yes Yes No No No hsa-mir-877* chr6: 30660152-30660173 4051 TCCTCTTCTCCCTCCTCCCAG Yes Yes Yes Yes Yes hsa-mir-29b chr7: 130212765-130212788 4052 AACACTGATTTCAAATGGTGCTA Yes Yes Yes Yes Yes hsa-mir-29b chr1: 206042417-206042440 4053 AACACTGATTTCAAATGGTGCTA Yes Yes Yes Yes Yes hsa-mir-29c chr1: 206041832-206041854 4054 TAACCGATTTCAAATGGTGCTA Yes Yes Yes Yes Yes hsa-mir-29a chr7: 130212046-130212068 4055 TAACCGATTTCAGATGGTGCTA Yes Yes Yes Yes Yes hsa-mir-20a chr13: 90801326-90801349 4056 TAAAGTGCTTATAGTGCAGGTAG Yes Yes Yes Yes Yes hsa-mir-640 chr19: 19406931-19406952 4057 ATGATCCAGGAACCTGCCTCT Yes Yes No No No hsa-mir-129-5p chr11: 43559533-43559554 4058 CTTTTTGCGGTCTGGGCTTGC Yes Yes Yes Yes Yes hsa-mir-129-5p chr7: 127635164-127635185 4059 CTTTTTGCGGTCTGGGCTTGC Yes Yes Yes Yes Yes hsa-mir-20b chrX: 133131545-133131568 4060 CTACCTGCACTATGAGCACTTTG Yes Yes Yes Yes Yes hsa-mir-645 chr20: 48635789-48635808 4061 TCTAGGCTGGTACTGCTGA Yes No No No No hsa-mir-644 chr20: 32517850-32517869 4062 AGTGTGGCTTTCTTAGAGC Yes Yes No No No hsa-mir-647 chr20: 62044487-62044508 4063 GAAGGAAGTGAGTGCAGCCAC No No No No No hsa-mir-646 chr20: 58316986-58317005 4064 AAGCAGCTGCCTCTGAGGC Yes No No No No hsa-mir-649 chr22: 19718479-19718501 4065 GACTCTTGAACAACACAGGTTT Yes Yes No No No hsa-mir-648 chr22: 16843693-16843712 4066 ACCAGTGCCCTGCACACTT Yes Yes No No No hsa-mir-760 chr1: 94085023-94085043 4067 CGGCTCTGGGTCTGTGGGGA Yes Yes Yes Yes Yes hsa-mir-766 chrX: 11864753-118664775 4068 GCTGAGGCTGTGGGGCTGGAGT Yes Yes No No No hsa-mir-765 chr1: 155172571-155172592 4069 CATCACCTTCCTTCTCCTCCA Yes Yes No No No hsa-mir-628-3p chr15: 53452443-53452464 4070 TCGACTGCCACTCTTACTAGA Yes Yes Yes No No hsa-mir-337-5p chr14: 100410604-100410625 4071 GAACGGCTTCATACAGGAGTT Yes Yes No No No hsa-mir-373* chr19: 58983775-58983797 4072 ACTCAAAATGGGGGCGCTTTCC Yes No No No No hsa-mir-369-5p chr14: 100601695-100601717 4073 AGATCGACCGTGTTATATTCGC Yes Yes No Yes Yes hsa-mir-1285 chr7: 91671276-91671298 4074 AGGTCTCACTTTGTTGCCCAGA Yes No No No No hsa-mir-1285 chr2: 70333568-70333590 4075 AGGTCTCACTTTGTTGCCCAGA Yes No No No No hsa-mir-222* chrX: 45491422-45491444 4076 AGGATCTACACTGGCTACTGAG No Yes Yes Yes Yes hsa-mir-298 chr20: 56826729-56826753 4077 TGGGAGAACCTCCCTGCTTCTGCT Yes Yes No No No hsa-mir-206 chr6: 52117157-52117179 4078 TGGAATGTAAGGAAGTGTGTGG Yes Yes Yes Yes Yes hsa-mir-297 chr4: 112001228-112001249 4079 CATGCACATGCACACATACAT Yes Yes Yes No No hsa-mir-589* chr7: 5501990-5502014 4080 TCTGGGAACCGGCATTTGTTCTGA Yes No Yes No No hsa-mir-124* chr20: 61280310-61280332 4081 CGTGTTCACAGCGGACCTTGAT No Yes Yes Yes Yes hsa-mir-124* chr8: 9798357-9798379 4082 ATCAAGGTCCGCTGTGAACACG No Yes Yes Yes Yes hsa-mir-124* chr8: 65454283-65454305 4083 CGTGTTCACAGCGGACCTTGAT Yes Yes Yes Yes Yes hsa-mir-185* chr22: 18400710-18400732 4084 AGGGGCTGGCTTTCCTCTGGTC Yes Yes Yes Yes Yes hsa-mir-486-3p chr8: 41637160-41637181 4085 CGGGGCAGCTCAGTACAGGAT Yes Yes Yes Yes Yes hsa-mir-486-3p chr8: 41637117-41637138 4086 ATCCTGTACTGAGCTGCCCCG Yes Yes Yes Yes No hsa-mir-1243 chr4: 114247471-114247493 4087 AACTGGATCAATTATAGGAGTG Yes Yes No No No hsa-mir-616* chr12: 56199272-56199294 4088 AAGTCACTGAAGGGTTTTGAGT Yes Yes No No No hsa-mir-1245 chr2: 189551106-189551127 4089 AAGTGATCTAAAGGCCTACAT Yes No No No No hsa-mir-1244 chr12: 12156206-12156232 4090 AAGTAGTTGGTTTGTATGAGATGGTT Yes Yes Yes Yes Yes hsa-mir-1244 chr12: 9283334-9283360 4091 AACCATCTCATACAAACCAACTACTT Yes Yes Yes Yes Yes hsa-mir-1244 chr2: 232286321-232286347 4092 AAGTAGTTGGTTTGTATGAGATGGTT Yes Yes Yes Yes Yes hsa-mir-1244 chr5: 118338233-118338259 4093 AAGTAGTTGGTTTGTATGAGATGGTT Yes Yes Yes Yes Yes hsa-mir-1247 chr14: 101096451-101096473 4094 TCCGGGGACGAACGGGACGGGT Yes Yes No Yes Yes hsa-mir-1246 chr2: 177173997-177174016 4095 CCTGCTCCAAAAATCCATT Yes Yes Yes No No hsa-mir-1249 chr22: 43975502-43975524 4096 TGAAGAAGGGGGGGAAGGGCGT Yes Yes Yes Yes No hsa-mir-491-3p chr9: 20706152-20706174 4097 CTTATGCAAGATTCCCTTCTAC Yes Yes Yes Yes No hsa-mir-148a* chr7: 25956104-25956126 4098 AGTCGGAGTGTCTCAGAACTTT Yes Yes Yes Yes No hsa-mir-92b* chr1: 153431610-153431632 4099 AGGGACGGGACGCGGTGCAGTG No Yes Yes Yes Yes hsa-mir-548o chr7: 101833199-101833221 4100 GCAAAAGTAACTGCAGTTTTGG Yes Yes No No No hsa-mir-891b chrX: 144890309-144890331 4101 TCAATGACTCAGGTAAGTTGCA Yes Yes No No No hsa-mir-548m chrX: 94204846-94204867 4102 CAAAAACCACAAATACCTTTG No No No No No hsa-mir-548l chr11: 93839358-93839380 4103 GACAAAACCCGCAAATACTTTT Yes Yes No No No hsa-mir-548k chr11: 69807739-69807761 4104 AAAAGTACTTGCGGATTTTGCT Yes No No No No hsa-mir-1283 chr19: 58883559-58883581 4105 TCTACAAAGGAAAGCGCTTTCT Yes Yes No No No hsa-mir-1283 chr19: 58953310-58953332 4106 TCTACAAAGGAAAGCGCTTTCT No No No No No hsa-mir-548i chrX: 83367460-83367482 4107 GGCAAAATCCGCAATTACTTTT No No No No No hsa-mir-548i chr3: 126992025-126992047 4108 GGCAAAATCCGCAATTACTTTT Yes No No No No hsa-mir-548i chr8: 7983961-7983983 4109 GGCAAAATCCGCAATTACTTTT Yes No No No No hsa-mir-548i chr4: 9166975-9166997 4110 GGCAAAATCCGCAATTACTTTT Yes No No No No hsa-mir-548h chr17: 13387638-13387660 4111 GACAAAAACCGCGATTACTTTT No Yes No No No hsa-mir-548h chr8: 26962359-26962381 4112 GACAAAAACCGCGATTACTTTT No No No No No hsa-mir-548h chr14: 63631554-63631576 4113 GACAAAAACCGCGATTACTTTT Yes Yes No No No hsa-mir-548h chr16: 11307848-11307870 4114 GACAAAAACCGCGATTACTTTT Yes Yes No No No hsa-mir-548g chr4: 148485244-148485266 4115 GTACAAAAGTAATTACAGTTTT Yes No No No No hsa-mir-548f chr5: 109877443-109877462 4116 AAAAGTAATTACAGTTTTT Yes Yes No No No hsa-mir-548f chr7: 146706065-146706084 4117 AAAAGTAATTACAGTTTTT Yes Yes No No No hsa-mir-548f chrX: 32569527-32569546 4118 AAAAGTAATTACAGTTTTT Yes Yes No No No hsa-mir-548f chr2: 212999252-212999271 4119 AAAAGTAATTACAGTTTTT Yes Yes No No No hsa-mir-548f chr10: 56037654-56037673 4120 AAAAGTAATTACAGTTTTT No No No No No hsa-mir-496 chr14: 100596717-100596739 4121 TGAGTATTACATGGCCAATCTC Yes Yes Yes Yes Yes hsa-mir-497 chr17: 6862021-6862042 4122 ACAAACCACAGTGTGCTGCTG Yes Yes Yes Yes Yes hsa-mir-190b chr1: 152432812-152432833 4123 AACCCAATATCAAACATATCA Yes Yes Yes Yes Yes hsa-mir-492 chr12: 93752333-93752356 4124 AGGACCTGCGGGACAAGATTCTT Yes Yes Yes No No hsa-mir-493 chr14: 100405205-100405227 4125 TGAAGGTCTACTGTGTGCCAGG No Yes Yes No Yes hsa-mir-199b-5p chr9: 130046882-130046905 4126 GAACAGATAGTCTAAACACTGGG Yes No Yes Yes No hsa-mir-891a chrX: 144917050-144917072 4127 TCAGTGGCTCAGGTTCGTTGCA Yes Yes No No No hsa-mir-500* chrX: 49659829-49659851 4128 ATGCACCTGGGCAAGGATTCTG Yes Yes Yes No No hsa-mir-105* chrX: 151311355-151311377 4129 TAGCACATGCTCAAACATCCGT Yes Yes Yes No Yes hsa-mir-105* chrX: 151313548-151313570 4130 TAGCACATGCTCAAACATCCGT Yes Yes Yes No Yes hsa-mir-513c chrX: 146078962-146078984 4131 ATAAACGACACCTCCTTGAGAA No No No No No hsa-mir-513b chrX: 146088302-146088324 4132 ATAAATGACACCTCCTTGTGAA Yes Yes No No No hsa-mir-18a* chr13: 90801051-90801074 4133 ACTGCCCTAAGTGCTCCTTCTGG Yes Yes Yes Yes Yes hsa-mir-548p chr5: 100180100-100180122 4134 AAAGTAACTGCAGTTTTTGCTA Yes No No No No hsa-mir-24-1* chr9: 96888129-96888151 4135 TGCCTACTGAGCTGATATCAGT Yes Yes Yes Yes Yes hsa-mir-582-5p chr5: 59035248-59035271 4136 AGTAACTGGTTGAACAACTGTAA Yes Yes Yes Yes Yes hsa-mir-668 chr14: 100591389-100591412 4137 TGTCACTCGGCTCGGCCCACTAC Yes Yes No Yes Yes hsa-mir-516a-5p chr19: 58951821-58951844 4138 TTCTCGAGGAAAGAAGCACTTTC Yes Yes No No No hsa-mir-516a-5p chr19: 58956213-58956236 4139 TTCTCGAGGAAAGAAGCACTTTC Yes Yes No No No hsa-mir-30a* chr6: 72169977-72169999 4140 GCTGCAAACATCCGACTGAAAG Yes Yes Yes Yes Yes hsa-mir-183 chr7: 129202042-129202064 4141 AGTGAATTCTACCAGTGCCATA Yes Yes Yes Yes Yes hsa-mir-186 chr1: 71305951-71305973 4142 AGCCCAAAAGGAGAATTCTTTG Yes Yes Yes Yes Yes hsa-mir-187 chr18: 31738795-31738817 4143 CCGGCTGCAACACAAGACACGA No Yes Yes Yes Yes hsa-mir-184 chr15: 77289236-77289258 4144 TGGACGGAGAACTGATAAGGGT Yes Yes Yes Yes Yes hsa-mir-185 chr22: 18400675-18400697 4145 TGGAGAGAAAGGCAGTTCCTGA Yes Yes Yes Yes Yes hsa-mir-198 chr3: 121597239-121597261 4146 GAACCTATCTCCCCTCTGGACC Yes Yes No No No hsa-let-7b chr22: 44888234-44888256 4147 TGAGGTAGTAGGTTGTGTGGTT Yes Yes Yes Yes Yes hsa-mir-455-5p chr9: 116011549-116011571 4148 TATGTGCCTTTGGACTACATCG Yes Yes Yes Yes Yes hsa-mir-518c chr19: 58903861-58903884 4149 CAAAGCGCTTCTCTTTAGAGTGT Yes Yes No No No hsa-mir-770-5p chr14: 100388498-100388521 4150 TCCAGTACCACGTGTCAGGGCCA Yes Yes No No No hsa-mir-380 chr14: 100561145-100561167 4151 TATGTAATATGGTCCACATCTT Yes Yes Yes No No hsa-mir-381 chr14: 100582057-100582079 4152 TATACAAGGGCAAGCTCTCTGT Yes Yes Yes Yes Yes hsa-mir-382 chr14: 100590405-100590427 4153 GAAGTTGTTCGTGGTGGATTCG Yes Yes Yes Yes Yes hsa-mir-383 chr8: 14755362-14755384 4154 AGCCACAATCACCTTCTGATCT Yes Yes Yes No No hsa-mir-384 chrX: 76056103-76056123 4155 TATGAACAATTTCTAGGAAT Yes Yes Yes Yes Yes hsa-mir-661 chr8: 145091361-145091385 4156 ACGCGCAGGCCAGAGACCCAGGCA Yes Yes No No No hsa-mir-421 chrX: 73354951-73354974 4157 GCGCCCAATTAATGTCTGTTGAT Yes Yes Yes Yes Yes hsa-mir-518f chr19: 58895132-58895153 4158 GAAAGCGCTTCTCTTTAGAGG Yes Yes No No No hsa-mir-660 chrX: 49664603-49664625 4159 TACCCATTGCATATCGGAGTTG Yes Yes Yes No No hsa-mir-425 chr3: 49032635-49032658 4160 TCAACGGGAGTGATCGTGTCATT Yes Yes Yes Yes Yes hsa-mir-424 chrX: 133508375-133508397 4161 TTCAAAACATGAATTGCTGCTG Yes Yes Yes Yes Yes hsa-mir-518c* chr19: 58903823-58903846 4162 TCTCTGGAGGGAAGCACTTTCTG Yes Yes No No No hsa-mir-543 chr14: 100568122-100568144 4163 AAACATTCGCGGTGCACTTCTT Yes Yes Yes Yes Yes hsa-mir-18a chr13: 90801010-90801033 4164 TAAGGTGCATCTAGTGCAGATAG Yes Yes Yes Yes Yes hsa-mir-138-1* chr3: 44130769-44130791 4165 GCTACTTCACAACACCAGGGCC No No Yes Yes Yes hsa-let-7e* chr19: 56887902-56887924 4166 CTATACGGCCTCCTAGCTTTCC Yes Yes Yes Yes Yes hsa-mir-545 chrX: 73423685-73423707 4167 GCACACAATAAATGTTTGCTGA Yes Yes No No No hsa-mir-549 chr15: 78921388-78921409 4168 AGAGCTCATCCATAGTTGTCA Yes Yes No No No hsa-mir-549 chr15: 78921423-78921444 4169 TGACAACTATGGATGAGCTCT Yes Yes No No No hsa-mir-133a chr20: 60572621-60572643 4170 TTTGGTCCCCTTCAACCAGCTG Yes Yes Yes Yes Yes hsa-mir-133a chr18: 17659670-17659692 4171 CAGCTGGTTGAAGGGGACCAAA Yes Yes Yes Yes Yes hsa-mir-574-3p chr4: 38546107-38546129 4172 CACGCTCATGCACACACCCACA No No Yes Yes No hsa-mir-133b chr6: 52121744-52121766 4173 TTTGGTCCCCTTCAACCAGCTA Yes Yes Yes Yes Yes hsa-mir-1237 chr11: 63892730-63892751 4174 TCCTTCTGCTCCGTCCCCCAG Yes Yes No No No hsa-mir-220c chr19: 53755391-53755413 4175 AGTCTTCACAACAGCCCTGTGT Yes No No No No hsa-mir-369-3p chr14: 100601730-100601751 4176 AATAATACATGGTTGATCTTT Yes Yes Yes Yes Yes hsa-mir-518e chr19: 58924956-58924977 4177 AAAGCGCTTCCCTTCAGAGTG Yes No No No No hsa-mir-519e* chr19: 58875018-58875040 4178 TTCTCCAAAAGGGAGCACTTTC Yes Yes No No No hsa-mir-15a chr13: 49521303-49521325 4179 CACAAACCATTATGTGCTGCTA Yes Yes Yes Yes No hsa-mir-769-5p chr19: 51214058-51214080 4180 TGAGACCTCTGGGTTCTGAGCT No No No No No hsa-mir-15b chr3: 161605088-161605110 4181 TAGCAGCACATCATGGTTTACA Yes Yes Yes Yes Yes hsa-mir-453 chr14: 100592322-100592345 4182 AGGTTGTCCGTGGTGAGTTCGCA Yes Yes Yes No Yes hsa-mir-876-5p chr9: 28853672-28853694 4183 TGGTGATTCACAAAGAAATCCA Yes Yes Yes Yes Yes hsa-mir-1226 chr3: 47866101-47866123 4184 TCACCAGCCCTGTGTTCCCTAG Yes Yes No No Yes hsa-mir-802 chr21: 36014899-36014922 4185 CAGTAACAAAGATTCATCCTTGT Yes Yes Yes Yes Yes hsa-mir-520a-5p chr19: 58885960-58885981 4186 CTCCAGAGGGAAGTACTTTCT Yes Yes No No No hsa-mir-552 chr1: 34907801-34907822 4187 TTGTCTAACCAGTCACCTGTT Yes Yes No No No hsa-mir-147b chr15: 43512587-43512609 4188 GTGTGCGGAAATGCTTCTGCTA Yes Yes Yes Yes Yes hsa-mir-432* chr14: 100420633-100420654 4189 CTGGATGGCTCCTCCATGTCT Yes Yes Yes Yes No hsa-mir-650 chr22: 21495284-21495305 4190 AGGAGGCAGCGCTCTCAGGAC Yes Yes No No No hsa-mir-146a* chr5: 159844992-159845014 4191 CCTCTGAAATTCAGTTCTTCAG No No Yes Yes No hsa-mir-335 chr7: 129923202-129923225 4192 TCAAGAGCAATAACGAAAAATGT Yes Yes Yes Yes No hsa-mir-520d-3p chr19: 58915214-58915236 4193 AAAGTGCTTCTCTTTGGTGGGT Yes Yes No No No hsa-mir-19b-1* chr13: 90801461-90801484 4194 AGTTTTGCAGGTTTGCATCCAGC Yes Yes Yes Yes Yes hsa-mir-1231 chr1: 200044365-200044385 4195 GTGTCTGGGCGGACAGCTGC No Yes No No No hsa-mir-146b-3p chr10: 104186302-104186324 4169 TGCCCTGTGGACTCAGTTCTGG Yes No No No No hsa-mir-875-5p chr8: 100618233-100618255 4197 CACCTGATAAAACTGAGGTATA Yes Yes Yes Yes Yes hsa-mir-874 chr5: 137011169-137011191 4198 TCGGTCCCTCGGGCCAGGGCAG Yes Yes Yes Yes Yes hsa-mir-873 chr9: 28878922-28878943 4199 AGGAGACTCACAAGTTCCTGC Yes Yes Yes Yes Yes hsa-mir-15b* chr3: 161605126-161605148 4200 CGAATCATTATTTGCTGCTCTA Yes Yes Yes Yes Yes hsa-mir-25* chr7: 99529168-99529189 4201 CAATTGCCCAAGTCTCCGCCT Yes Yes Yes Yes Yes hsa-mir-1185 chr14: 100579080-100579101 4202 AGAGGATACCCTTTGTATGTT Yes Yes Yes No No hsa-mir-1185 chr14: 100580301-100580322 4203 AGAGGATACCCTTTGTATGTT Yes Yes Yes No No hsa-mir-720 chr3: 165541848-165541865 4204 TCTCGCTGGGGCCTCCA Yes No No No No hsa-mir-409-3p chr14: 100601435-100601457 4205 GAATGTTGCTCGGTGAACCCCT Yes Yes Yes Yes Yes hsa-mir-1182 chr1: 229222209-229222232 4206 GTCACATCCCTCCCAAGACCCTC Yes Yes No No No hsa-mir-1179 chr15: 86952355-86952376 4207 AAGCATTCTTTCATTGGTTGG Yes Yes No No No hsa-mir-1178 chr12: 118635836-118635857 4208 CTAGGGAAGAACAGTGAGCAA Yes Yes No No No hsa-mir-367* chr4: 113788519-113788541 4209 AGAGTTGCATATTAGCAACAGT Yes Yes Yes Yes No hsa-mir-150 chr19: 54695900-54695922 4210 CACTGGTACAAGGGTTGGGAGA Yes Yes Yes Yes Yes hsa-mir-153 chr7: 157059801-157059823 4211 GATCACTTTTGTGACTATGCAA Yes Yes Yes Yes Yes hsa-mir-153 chr2: 219867091-219867113 4212 GATCACTTTTGTGACTATGCAA No Yes Yes No No hsa-mir-152 chr17: 43469538-43469559 4213 CCAAGTTCTGTCATGCACTGA Yes Yes Yes Yes Yes hsa-mir-155 chr21: 25868165-25868188 4214 TTAATGCTAATCGTGATAGGGGT Yes Yes Yes Yes No hsa-mir-154 chr14: 100595858-100595880 4215 TAGGTTATCCGTGTTGCCTTCG Yes Yes No Yes Yes hsa-mir-634 chr17: 62213711-62213733 4216 AACCAGCACCCCAACTTTGGAC Yes No No No No hsa-mir-377* chr14: 100598145-100598167 4217 AGAGGTTGCCCTTGGTGAATTC Yes Yes Yes Yes Yes hsa-mir-1228 chr12: 55874604-55874624 4218 TCACACCTGCCTCGCCCCCC No Yes No No No hsa-mir-199a-5p chr1: 170380354-170380377 4219 GAACAGGTAGTCTGAACACTGGG Yes Yes Yes Yes Yes hsa-mir-199a-5p chr19: 10789144-10789167 4220 GAACAGGTAGTCTGAACACTGGG Yes Yes Yes Yes No hsa-mir-767-5p chrX: 151312608-151312631 4221 CATGCTCAGACAACCATGGTGCA No Yes No Yes Yes hsa-mir-151-3p chr8: 141811867-141811888 4222 CCTCAAGGAGCTTCAGTCTAG Yes Yes Yes No No hsa-mir-154* chr14: 100595894-100595916 4223 AATCATACACGGTTGACCTATT Yes Yes No Yes Yes hsa-mir-483-5p chr11: 2111986-2112008 4224 CTCCCTTCTTTCCTCCCGTCTT No No No Yes Yes hsa-mir-33a chr22: 40626898-40626919 4225 GTGCATTGTAGTTGCATTGCA Yes No Yes Yes Yes hsa-mir-33b chr17: 17657935-17657955 4226 GCAATGCAACAGCAATGCAC Yes Yes Yes No No hsa-mir-1304 chr11: 93106537-93106559 4227 CACATCTCACTGTAGCCTCAAA Yes Yes No No No hsa-mir-25 chr7: 99529129-99529151 4228 TCAGACCGAGACAAGTGCAATG Yes Yes Yes Yes Yes hsa-mir-1306 chr22: 18453634-18453652 4229 ACGTTGGCTCTGGTGGTG Yes Yes Yes Yes Yes hsa-mir-1307 chr10: 105144047-105144069 4230 CACGACCGACGCCACGCCGAGT Yes Yes Yes No No hsa-mir-1300 chr15: 51017866-51017884 4231 CAGCAGCCTCCTTCTCAA Yes No Yes Yes Yes hsa-mir-21 chr17: 55273415-55273437 4232 TAGCTTATCAGACTGATGTTGA Yes Yes Yes Yes Yes hsa-mir-22 chr17: 1563957-1563979 4233 ACAGTTCTTCAACTGGCAGCTT Yes No Yes Yes Yes hsa-mir-596 chr8: 1752818-1752839 4234 AAGCCTGCCCGGCTCCTCGGG Yes Yes No No No hsa-mir-599 chr8: 100618054-100618074 4235 GTTTGATAAACTGACACAAC Yes Yes Yes Yes No hsa-mir-598 chr8: 10930140-10930162 4236 TGACGATGACAACGATGACGTA Yes No No Yes Yes hsa-mir-610 chr11: 28034990-28035011 4237 TCCCAGCACACATTTAGCTCA Yes No No No No hsa-mir-610 chr11: 28034952-28034973 4238 TGAGCTAAATGTGTGCTGGGA Yes No No No No hsa-mir-611 chr11: 61316547-61316570 4239 GTCAGACCCCGAGGGGTCCTCGC Yes Yes No No No hsa-mir-616 chr12: 56199232-56199254 4240 CTGCTCAAACCCTCCAATGACT Yes Yes No No No hsa-mir-617 chr12: 79750502-79750524 4241 GCCACCTTCAAATGGGAAGTCT Yes Yes No No No hsa-mir-614 chr12: 12960082-12960105 4242 GAACGCCTGTTCTTGCCAGGTGG Yes No No No No hsa-mir-517c chr19: 58936434-58936456 4243 ATCGTGCATCCTTTTAGAGTGT Yes Yes No No No hsa-mir-517b chr19: 58916184-58916206 4244 TCGTGCATCCCTTTAGAGTGTT Yes No No No No hsa-mir-517a chr19: 58907386-58907408 4245 ATCGTGCATCCCTTTAGAGTGT Yes Yes No No No hsa-mir-495 chr14: 100569893-100569915 4246 AAACAAACATGGTGCACTTCTT Yes Yes Yes Yes Yes hsa-mir-671-3p chr7: 150566506-150566527 4247 TCCGGTTCTCAGGGCTCCACC Yes Yes Yes Yes Yes hsa-mir-135a* chr3: 52303287-52303309 4248 CGCCACGGCTCCAATCCCTATA Yes Yes Yes Yes No hsa-mir-513a-3p chrX: 146102707-146102730 4249 CCTTCTCAGAAAGGTGAAATTTA Yes No No No No hsa-mir-513a-3p chrX: 146115069-146115092 4250 CCTTCTCAGAAAGGTGAAATTTA Yes Yes No No No hsa-mir-525-5p chr19: 58892612-58892633 4251 CTCCAGAGGGATGCACTTTCT Yes Yes No No No hsa-mir-758 chr14: 100562160-100562182 4252 TTTGTGACCTGGTCCACTAACC Yes Yes Yes Yes Yes hsa-mir-187* chr18: 31738831-31738853 4253 GCCCGGGTCCTGTGTTGTAGCC No Yes Yes Yes Yes hsa-mir-520d-5p chr19: 58915176-58915196 4254 CTACAAAGGGAAGCCCTTTC Yes Yes No No No hsa-mir-522* chr19: 58946291-58946313 4255 CTCTAGAGGGAAGCGCTTTCTG Yes Yes No No No hsa-mir-101 chr9: 4840344-4840365 4256 TACAGTACTGTGATAACTGAA Yes Yes Yes Yes Yes hsa-mir-101 chr1: 65296712-65296733 4257 TTCAGTTATCACAGTACTGTA Yes Yes Yes Yes Yes hsa-mir-299-3p chr14: 100559921-100559943 4258 TATGTGGGATGGTAAACCGCTT Yes Yes Yes Yes Yes hsa-mir-107 chr10: 91342492-91342515 4259 TGATAGCCCTGTACAATGCTGCT Yes Yes Yes Yes Yes hsa-mir-1278 chr1: 191372304-191372326 4260 TAGTACTGTGCATATCATCTAT Yes Yes Yes No No hsa-mir-1279 chr12: 67953234-67953251 4261 AGAAAGAAGCAATATGA Yes No Yes Yes Yes hsa-mir-219-1-3p chr6: 33283650-33283672 4262 AGAGTTGAGTCTGGACGTCCCG Yes Yes Yes No No hsa-mir-541 chr14: 100600637-100600659 4263 TGGTGGGCACAGAATCTGGACT Yes Yes Yes No No hsa-mir-1270 chr19: 20371127-20371150 4264 ACACAGCTCTTCCATATCTCCAG No No No No No hsa-mir-1271 chr5: 175727568-175727590 4265 CTTGGCACCTAGCAAGCACTCA Yes Yes Yes Yes Yes hsa-mir-1272 chr15: 62841722-62841748 4266 TTTCAGAATTTGCTGCCATCATCATC Yes No No No No hsa-mir-1273 chr8: 101105388-101105413 4267 AAGAAAGAGTCTTGCTTTGTCGCCC Yes No No No No hsa-mir-1275 chr6: 34075772-34075789 4268 GACAGCCTCTCCCCCAC Yes Yes No No No hsa-mir-1276 chr15: 84114782-84114802 4269 TGTCTCCACAGGGCTCTTTA Yes No No No No hsa-mir-1277 chrX: 117404430-117404452 4270 TACGTAGATATATATGTATTTT No Yes Yes No No hsa-mir-488* chr1: 175265170-175265191 4271 TTGAGAGTGCCATTATCTGGG Yes Yes Yes Yes Yes hsa-mir-219-2-3p chr9: 130194731-130194753 4272 ACAGATGTCCAGCCACAATTCT Yes Yes Yes Yes Yes hsa-mir-142-5p chr17: 53763642-53763663 4273 AGTAGTGCTTTCTACTTTATG Yes Yes Yes Yes Yes hsa-mir-615-3p chr12: 52714060-52714082 4274 TCCGAGCCTGGGTCTCCCTCTT Yes Yes Yes Yes Yes hsa-mir-130b chr22: 20337642-20337664 4275 CAGTGCAATGATGAAAGGGCAT Yes Yes Yes Yes Yes hsa-mir-506 chrX: 146119962-146119983 4276 TCTACTCAGAAGGGTGCCTTA Yes Yes Yes No No hsa-mir-507 chrX: 146120211-146120232 4277 TTCACTCCAAAAGGTGCAAAA Yes Yes No No No hsa-mir-504 chrX: 137577586-137577608 4278 GATAGAGTGCAGACCAGGGTCT Yes Yes Yes Yes Yes hsa-mir-885-5p chr3: 10411214-10411236 4279 AGAGGCAGGGTAGTGTAATGGA Yes Yes Yes No No hsa-mir-944 chr3: 191030457-191030479 4280 AAATTATTGTACATCGGATGAG Yes Yes No No No hsa-mir-500 chrX: 49659790-49659813 4281 TAATCCTTGCTACCTGGGTGAGA Yes Yes Yes Yes No hsa-let-7d* chr9: 95980997-95981019 4282 CTATACGACCTGCTGCCTTTCT Yes Yes Yes Yes Yes hsa-mir-545* chrX: 73423723-73423745 4283 TCATCTAATAAACATTTACTGA Yes Yes No No Yes hsa-mir-942 chr1: 117438799-117438821 4284 TCTTCTCTGTTTTGGCCATGTG Yes Yes No No No hsa-mir-200a* chr1: 1093120-1093142 4285 CATCTTACCGGACAGTGCTGGA Yes Yes Yes Yes Yes hsa-mir-130a* chr11: 57165266-57165288 4286 TTCACATTGTGCTACTGTCTGC Yes Yes Yes Yes Yes hsa-mir-1266 chr15: 50356654-50356677 4287 AGCCCTGTTCTACAGCCCTGAGG Yes Yes No No No hsa-mir-548a-3p chr6: 18680053-18680075 4288 CAAAACTGGCAATTACTTTTGC Yes No No No No hsa-mir-548a-3p chr6: 135602050-135602072 4289 CAAAACTGGCAATTACTTTTGC Yes No No No No hsa-mir-548a-3p chr8: 105565787-105565809 4290 GCAAAAGTAATTGCCAGTTTTG No Yes No No No hsa-mir-557 chr1: 166611445-166611468 4291 GTTTGCACGGGTGGGCCTTGTCT Yes No No No No hsa-mir-1238 chr19: 10523858-10523878 4292 CTTCCTCGTCTGTCTGCCCC No No No No No hsa-mir-920 chr12: 24256671-24256691 4293 GGGGAGCTGTGGAAGCAGTA Yes Yes No No No hsa-mir-921 chr1: 164390633-164390658 4294 GAATCCTGGTTCTGTCCCTCACTAG Yes Yes No No No hsa-mir-922 chr3: 198885765-198885788 4295 GACGTAGTCCTATTCTCTGCTGC Yes Yes No No No hsa-mir-923 chr17: 30502320-30502341 4296 AGTTTCTTTTCCTCCGCTGAC Yes No No No No hsa-mir-924 chr18: 35456114-35456134 4297 GCAAGACATCACAAGACTCT Yes Yes No No No hsa-mir-193b* chr16: 14305337-14305359 4298 CGGGGTTTTGAGGGCGAGATGA Yes Yes Yes Yes No hsa-mir-378 chr5: 149092622-149092643 4299 ACTGGACTTGGAGTCAGAAGG Yes Yes Yes No No hsa-mir-320c chr18: 20155677-20155697 4300 AAAAGCTGGGTTGAGAGGGT Yes No Yes Yes Yes hsa-mir-320c chr18: 17517517-17517537 4301 AAAAGCTGGGTTGAGAGGGT Yes Yes Yes Yes No hsa-mir-320b chr1: 222511373-222511395 4302 TTGCCCTCTCAACCCAGCTTTT Yes Yes No No No hsa-mir-320b chr1: 117015931-117015953 4303 AAAAGCTGGGTTGAGAGGGCAA Yes Yes Yes Yes Yes hsa-mir-320a chr8: 22158432-22158454 4304 TCGCCCTCTCAACCCAGCTTTT Yes Yes Yes Yes Yes hsa-mir-324-3p chr17: 7067350-7067370 4305 CCAGCAGCACCTGGGGCAGT Yes Yes Yes Yes Yes hsa-mir-370 chr14: 100447275-100447297 4306 GCCTGCTGGGGTGGAACCTGGT Yes Yes Yes Yes Yes hsa-mir-431* chr14: 100417158-100417180 4307 CAGGTCGTCTTGCAGGGCTTCT Yes Yes Yes Yes Yes hsa-mir-372 chr19: 58982996-58983019 4308 AAAGTGCTGCGACATTTGAGCGT Yes Yes Yes No Yes hsa-mir-375 chr2: 219574613-219574635 4309 TCACGCGAGCCGAACGAACAAA Yes Yes Yes Yes Yes hsa-mir-422a chr15: 61950240-61950262 4310 GCCTTCTGACCCTAAGTCCAGT Yes Yes No No No hsa-mir-377 chr14: 100598183-100598205 4311 ATCACACAAAGGCAACTTTTGT Yes Yes Yes Yes Yes hsa-mir-362-3p chrX: 49660352-49660374 4312 AACACACCTATTCAAGGATTCA Yes Yes Yes Yes Yes hsa-mir-579 chr5: 32430254-32430277 4313 AATCGCGGTTTATACCAAATGAA Yes Yes No No No hsa-mir-578 chr4: 166526903-166526924 4314 CTTCTTGTGCTCTAGGATTGT Yes Yes No No No hsa-mir-24-2* chr19: 13808139-13808161 4315 CTGTGTTTCAGCTCAGTAGGCA Yes Yes Yes Yes Yes hsa-mir-573 chr4: 24130972-24130996 4316 CTGATCAGTTACACATCACTTCAG Yes Yes No No No hsa-mir-572 chr4: 10979608-10979628 4317 GTCCGCTCGGCGGTGGCCCA Yes Yes No No No hsa-mir-571 chr4: 334005-334026 4318 TGAGTTGGCCATCTGAGTGAG Yes Yes No No No hsa-mir-570 chr3: 196911510-196911532 4319 CGAAAACAGCAATTACCTTTGC No No No No No hsa-mir-577 chr4: 115797378-115797399 4320 TAGATAAAATATTGGTACCTG Yes Yes No No No hsa-mir-520c-3p chr19: 58902571-58902593 4321 AAAGTGCTTCCTTTTAGAGGGT Yes Yes No No No hsa-mir-509-3-5p chrX: 146148905-146148927 4322 CATGATTGCCACGTCTGCAGTA Yes No No No Yes hsa-mir-23a* chr19: 13808443-13808465 4323 AAATCCCATCCCCAGGAACCCC Yes Yes Yes Yes Yes hsa-mir-518f* chr19: 58895095-58895117 4324 CTCTAGAGGGAAGCACTTTCTC Yes Yes No No No hsa-mir-195* chr17: 6861670-6861692 4325 GGAGCAGCACAGCCAATATTGG Yes Yes Yes Yes Yes hsa-mir-576-5p chr4: 110629317-110629339 4326 ATTCTAATTTCTCCACGTCTTT Yes Yes No No No hsa-mir-575 chr4: 83893528-83893547 4327 GCTCCTGTCCAACTGGCTC Yes No No No No hsa-mir-21* chr17: 55273453-55273474 4328 CAACACCAGTCGATGGGCTGT Yes Yes No Yes Yes hsa-mir-27b* chr9: 96887565-96887587 4329 AGAGCTTAGCTGATTGGTGAAC Yes Yes Yes Yes Yes hsa-mir-217 chr2: 56063658-56063681 4330 TCCAATCAGTTCCTGATGCAGTA Yes Yes Yes Yes Yes hsa-mir-214 chr1: 170374578-170374600 4331 ACTGCCTGTCTGTGCCTGCTGT Yes Yes Yes Yes Yes hsa-mir-215 chr1: 218357880-218357901 4332 GTCTGTCAATTCATAGGTCAT Yes Yes Yes Yes Yes hsa-mir-212 chr17: 1900333-1900354 4333 GGCCGTGACTGGAGACTGTTA No Yes Yes Yes Yes hsa-mir-210 chr11: 558111-558133 4334 TCAGCCGCTGTCACACGCACAG Yes Yes Yes Yes Yes hsa-mir-211 chr15: 29144589-29144611 4335 AGGCGAAGGATGACAAAGGGAA Yes Yes Yes Yes Yes hsa-mir-92a chrX: 133131239-133131261 4336 ACAGGCCGGGACAAGTGCAATA Yes Yes Yes Yes Yes hsa-mir-92a chr13: 90801615-90801637 4337 TATTGCACTTGTCCCGGCCTGT Yes Yes Yes Yes Yes hsa-mir-92b chr1: 153431651-153431673 4338 TATTGCACTCGTCCCGGCCTCC No Yes Yes Yes Yes hsa-mir-218 chr4: 20139019-20139040 4339 TTGTGCTTGATCTAACCATGT Yes Yes Yes Yes Yes hsa-mir-218 chr5: 168127793-168127814 4340 ACATGGTTAGATCAAGCACAA Yes Yes Yes Yes Yes hsa-mir-515-3p chr19: 58874118-58874140 4341 GAGTGCCTTCTTTTGGAGCGTT Yes No No No No hsa-mir-515-3p chr19: 58880124-58880146 4342 GAGTGCCTTCTTTTGGAGCGTT Yes No No No No hsa-mir-1 chr18: 17662973-17662995 4343 ATACATACTTCTTTACATTCCA Yes Yes Yes Yes Yes hsa-mir-1 chr20: 60562002-60562024 4344 TGGAATGTAAAGAAGTATGTAT Yes Yes Yes Yes Yes hsa-mir-425* chr3: 49032595-49032617 4345 GGGCGGACACGACATTCCCGAT Yes Yes Yes Yes Yes hsa-mir-522 chr19: 58946329-58946351 4346 AAAATGGTTCCCTTTAGAGTGT Yes Yes No No No hsa-mir-7 chr9: 85774546-85774569 4347 ACAACAAAATCACTAGTCTTCCA Yes Yes Yes Yes Yes hsa-mir-7 chr15: 86956090-86956113 4348 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes Yes Yes hsa-mir-7 chr19: 4721711-4721734 4349 TGGAAGACTAGTGATTTTGTTGT Yes Yes Yes Yes Yes hsa-mir-9 chr15: 87712266-87712289 4350 TCTTTGGTTATCTAGCTGTATGA Yes Yes Yes Yes Yes hsa-mir-9 chr1: 154656807-154656830 4351 TCATACAGCTAGATAACCAAAGA Yes Yes Yes Yes Yes hsa-mir-9 chr5: 87998475-87998498 4352 TCATACAGCTAGATAACCAAAGA Yes Yes Yes Yes Yes hsa-mir-615-5p chr12: 52714017-52714039 4353 GGGGGTCCCCGGTGCTCGGATC Yes Yes Yes Yes Yes hsa-mir-512-3p chr19: 58861794-58861816 4354 AAGTGCTGTCATAGCTGAGGTC Yes No No No No hsa-mir-512-3p chr19: 58864278-58864300 4355 AAGTGCTGTCATAGCTGAGGTC No Yes No No No hsa-mir-202* chr10: 134911066-134911088 4356 CAAAGAAGTATATGCATAGGAA Yes No Yes Yes Yes hsa-mir-888* chrX: 144884003-144884025 4357 TTCACCCAAAGAGGTGTCAGTC No Yes No No No hsa-mir-143* chr5: 148788699-148788721 4358 GGTGCAGTGCTGCATCTCTGGT Yes Yes Yes Yes Yes hsa-mir-526b chr19: 58889471-58889494 4359 CTCTTGAGGGAAGCACTTTCTGT Yes Yes No No No hsa-mir-656 chr14: 100602855-100602876 4360 AATATTATACAGTCAACCTCT Yes Yes Yes No No hsa-mir-657 chr17: 76713685-76713708 4361 CCTAGAGAGGGTGAGAACCTGCC Yes Yes No No No hsa-mir-655 chr14: 100585699-100585721 4362 ATAATACATGGTTAACCTCTTT Yes No Yes No No hsa-mir-652 chrX: 109185272-109185293 4363 AATGGCGCCACTAGGGTTGTG Yes Yes No No No hsa-mir-653 chr7: 92950070-92950091 4364 CAGTAGAGATTGTTTCAACAC Yes Yes Yes Yes Yes hsa-mir-518a-3p chr19: 58926121-58926143 4365 GAAAGCGCTTCCCTTTGCTGGA Yes No No No No hsa-mir-518a-3p chr19: 58934450-58934472 4366 GAAAGCGCTTCCCTTTGCTGGA Yes No No No No hsa-mir-651 chrX: 8055020-8055042 4367 TTTAGGATAAGCTTGACTTTTG Yes No No No No hsa-mir-302f chr18: 26132899-26132916 4368 TAATTGCTTCCATGTTT Yes Yes Yes Yes Yes hsa-mir-1184 chrX: 154265958-154265981 4369 GGAAGCCATCAAGTCGCTGCAGG Yes Yes Yes Yes Yes hsa-mir-1184 chrX: 154340431-154340454 4370 CCTGCAGCGACTTGATGGCTTCC Yes Yes Yes Yes Yes hsa-mir-1184 chrX: 153768844-153768867 4371 GGAAGCCATCAAGTCGCTGCAGG Yes Yes Yes Yes Yes hsa-mir-302d chr4: 113788610-113788633 4372 ACACTCAAACATGGAAGCACTTA Yes Yes Yes Yes No hsa-mir-302c chr4: 113788970-113788993 4373 CCACTGAAACATGGAAGCACTTA Yes Yes Yes Yes No hsa-mir-302b chr4: 113789093-113789116 4374 CTACTAAAACATGGAAGCACTTA Yes Yes Yes Yes No hsa-mir-1180 chr17: 19188418-19188440 4375 ACACACCCACGCGAGCCGGAAA Yes Yes Yes No No hsa-mir-1181 chr19: 10375180-10375201 4376 CGGCTCGGGTGGCGGCGACGG Yes Yes No No No hsa-mir-629* chr15: 68158779-68158801 4377 GCTGGGCTTACGTTGGGAGAAC No No No No No hsa-mir-302e chr11: 7212577-7212594 4378 TAAGTGCTTCCATGCTT Yes Yes No No No hsa-mir-103 chr5: 167920486-167920509 4379 TCATAGCCCTGTACAATGCTGCT Yes Yes Yes Yes Yes hsa-mir-103 chr20: 3846187-3846210 4380 AGCAGCATTGTACAGGGCTATGA Yes Yes Yes Yes Yes hsa-mir-100 chr11: 121528192-121528214 4381 CACAAGTTCGGATCTACGGGTT Yes Yes Yes Yes Yes hsa-mir-138-2* chr16: 55449986-55450008 4382 GCTATTTCACGACACCAGGGTT Yes Yes Yes Yes Yes hsa-mir-122* chr18: 54269335-54269357 4383 AACGCCATTATCACACTAAATA Yes Yes Yes Yes Yes hsa-mir-105 chrX: 151311392-151311415 4384 ACCACAGGAGTCTGAGCATTTGA Yes Yes Yes No No hsa-mir-105 chrX: 151313585-151313608 4385 ACCACAGGAGTCTGAGCATTTGA Yes Yes Yes No No hsa-mir-223* chrX: 65155461-65155483 4386 CGTGTATTTGACAAGCTGAGTT Yes Yes Yes Yes Yes hsa-mir-363* chrX: 133131120-133131142 4387 AAATTGCATCGTGATCCACCCG No Yes Yes Yes Yes hsa-mir-28-5p chr3: 189889275-189889297 4388 AAGGAGCTCACAGTCTATTGAG Yes Yes Yes Yes Yes hsa-mir-150* chr19: 54695865-54695887 4389 CTGTCCCCCAGGCCTGTACCAG Yes Yes Yes Yes Yes hsa-mir-99a* chr21: 16833328-16833350 4390 CAAGCTCGCTTCTATGGGTCTG Yes Yes Yes Yes Yes hsa-mir-1825 chr20: 30289293-30289311 4391 TCCAGTGCCCTCCTCTCC Yes Yes No No No hsa-mir-129* chr7: 127635208-127635230 4392 AAGCCCTTACCCCAAAAAGTAT Yes Yes Yes Yes Yes hsa-mir-556-3p chr1: 160579013-160579035 4393 ATATTACCATTAGCTCATCTTT Yes No No No No hsa-mir-10b chr2: 176723302-176723325 4394 TACCCTGTAGAACCGAATTTGTG Yes Yes Yes Yes Yes hsa-mir-1827 chr12: 99107840-99107858 4395 TGAGGCAGTAGATTGAAT Yes Yes No No No hsa-mir-10a chr17: 44012264-44012287 4396 CACAAATTCGGATCTACAGGGTA Yes Yes Yes Yes Yes hsa-mir-623 chr13: 98806400-98806423 4397 ATCCCTTGCAGGGGCTGTTGGGT Yes Yes No No No hsa-mir-622 chr13: 89681496-89681517 4398 ACAGTCTGCTGAGGTTGGAGC Yes No No No No hsa-mir-621 chr13: 40282961-40282982 4399 GGCTAGCAACAGCGCTTACCT Yes No No No No hsa-mir-620 chr12: 115070762-115070782 4400 ATTTCTATATCTATCTCCAT Yes No No No No hsa-mir-127-5p chr14: 100419090-100419112 4401 CTGAAGCTCAGAGGGCTCTGAT Yes Yes Yes Yes Yes hsa-mir-626 chr15: 39771134-39771153 4402 AGCTGTCTGAAAATGTCTT Yes No No No No hsa-mir-625 chr14: 65007622-65007643 4403 GGACTATAGAACTTTCCCCCT Yes No No No No hsa-mir-625 chr14: 65007586-65007607 4404 AGGGGGAAAGTTCTATAGTCC Yes No No No No hsa-mir-182* chr7: 129197481-129197502 4405 TAGTTGGCAAGTCTAGAACCA Yes Yes Yes Yes No hsa-mir-1292 chr20: 2581424-2581449 4406 TGGGAACGGGTTCCGGCAGACGCTG Yes No No No No hsa-mir-342-3p chr14: 99645804-99645827 4407 TCTCACACAGAAATCGCACCCGT Yes Yes Yes Yes Yes hsa-mir-1290 chr1: 19096158-19096177 4408 TCCCTGATCCAAAAATCCA Yes Yes No No No hsa-mir-1291 chr12: 47334543-47334567 4409 ACTGCTGGTCTTCAGTCAGGGCCA Yes Yes Yes No No hsa-mir-1296 chr10: 64802777-64802799 4410 GGAGATGGAGCCAGGGCCCTAA Yes Yes Yes No No hsa-mir-1297 chr13: 53784116-53784133 4411 CACCTGAATTACTTGAA Yes Yes Yes No No hsa-mir-1294 chr5: 153706905-153706927 4412 TGTGAGGTTGGCATTGTTGTCT Yes No No No No hsa-mir-1225-5p chr16: 2080264-2080286 4413 CCCCCCACTGGGCCGTACCCAC Yes Yes Yes Yes Yes hsa-mir-509-5p chrX: 146148020-146148041 4414 TGATTGCCACTGTCTGCAGTA Yes Yes Yes Yes Yes hsa-mir-509-5p chrX: 146149795-146149816 4415 TGATTGCCACTGTCTGCAGTA Yes Yes No Yes Yes hsa-mir-1224-3p chr3: 185441950-185441971 4416 CCCCACCTCCTCTCTCCTCAG Yes Yes Yes Yes Yes hsa-mir-140-3p chr16: 68524545-68524566 4417 TACCACAGGGTAGAACCACGG Yes Yes Yes Yes Yes hsa-mir-532-3p chrX: 49654549-49654571 4418 CCTCCCACACCCAAGGCTTGCA Yes Yes Yes Yes Yes hsa-mir-1298 chrX: 113855922-113855944 4419 TTCATTCGGCTGTCCAGATGTA Yes Yes Yes Yes Yes hsa-mir-26b chr2: 218975623-218975644 4420 TTCAAGTAATTCAGGATAGGT Yes Yes Yes Yes Yes hsa-let-7f-2* chrX: 53600881-53600903 4421 GGAAAGACAGTAGACTGTATAG Yes Yes Yes Yes Yes hsa-mir-585 chr5: 168623197-168623216 4422 TAGCATACAGATACGCCCA Yes No No No No hsa-mir-490-5p chr7: 136238491-136238511 4423 CCATGGATCTCCAGGTGGGT Yes Yes Yes Yes Yes hsa-mir-519c-3p chr19: 58881587-58881609 4424 AAAGTGCATCTTTTTAGAGGAT Yes Yes No No No hsa-mir-513a-5p chrX: 146115109-146115127 4425 ATGACACCTCCCTGTGAA Yes Yes Yes No No hsa-mir-513a-5p chrX: 146102747-146102765 4426 ATGACACCTCCCTGTGAA Yes Yes Yes No No hsa-mir-591 chr7: 95686969-95686989 4427 ACAATGAGAACCCATGGTCT Yes No No No No hsa-mir-191* chr3: 49033067-49033089 4428 GGGGACGAAATCCAAGCGCAGC Yes Yes Yes No No hsa-mir-1305 chr4: 183327489-183327511 4429 TTTTCAACTCTAATGGGAGAGA No No No Yes No hsa-mir-624 chr14: 30553625-30553646 4430 AGGTAATACCAATACCTTGTG Yes No No No No hsa-mir-593 chr7: 127509226-127509245 4431 TGTCTCTGCTGGGGTTTCT Yes Yes No No No hsa-mir-302a chr4: 113788790-113788813 4432 TCACCAAAACATGGAAGCACTTA Yes Yes Yes Yes No hsa-mir-592 chr7: 126485437-126485459 4433 ACATCATCGCATATTGACACAA Yes Yes Yes Yes Yes hsa-mir-1293 chr12: 48914231-48914253 4434 GCACAAATCTCCAGACCACCCA Yes Yes No No No hsa-mir-30e* chr1: 40992671-40992693 4435 CTTTCAGTCGGATGTTTACAGC Yes Yes Yes Yes Yes hsa-mir-432 chr14: 100420585-100420608 4436 TCTTGGAGTAGGTCATTGGGTGG Yes Yes Yes Yes No hsa-mir-629 chr15: 68158819-68158840 4437 AGTTCTCCCAACGTAAACCCA No No No No No hsa-mir-96* chr7: 129201772-129201794 4438 CATATTGGCACTGCACATGATT Yes Yes Yes Yes Yes hsa-mir-1301 chr2: 25405023-25405047 4439 GAAGTCACTCCCAGGCAGCTGCAA No No Yes Yes Yes hsa-mir-200b* chr1: 1092366-1092388 4440 CATCTTACTGGGCAGCATTGGA No No Yes Yes Yes hsa-mir-181c* chr19: 13846576-13846598 4441 AACCATCGACCGTTGAGTGGAC Yes Yes Yes Yes Yes hsa-mir-508-3p chrX: 146126154-146126177 4442 TCTACTCCAAAAGGCTACAATCA Yes No No No No hsa-mir-1303 chr5: 154045579-154045601 4443 TTTAGAGACGGGGTCTTGCTCT Yes Yes No No No hsa-mir-539 chr14: 100583418-100583440 4444 GGAGAAATTATCCTTGGTGTGT Yes Yes Yes Yes Yes hsa-mir-10b* chr2: 176723341-176723363 4445 ACAGATTCGATTCTAGGGGAAT Yes Yes Yes Yes Yes hsa-mir-612 chr11: 64968519-64968544 4446 GCTGGGCAGGGCTTCTGAGCTCCTT Yes Yes No No No hsa-mir-613 chr12: 12808909-12808929 4447 AGGAATGTTCCTTCTTTGCC Yes No No No No hsa-mir-1295 chr1: 169337502-169337523 4448 TCACCCAGATCTGCGGCCTAA Yes Yes No No No hsa-mir-196a chr17: 44064892-44064914 4449 CCCAACAACATGAAACTACCTA Yes Yes Yes Yes Yes hsa-mir-196a chr12: 52671812-52671834 4450 TAGGTAGTTTCATGTTGTTGGG Yes Yes Yes Yes Yes hsa-mir-196b chr7: 27175671-27175693 4451 CCCAACAACAGGAAACTACCTA Yes Yes Yes Yes Yes hsa-mir-296-3p chr20: 56826075-56826097 4452 GGAGAGCCTCCACCCAACCCTC Yes Yes Yes Yes Yes hsa-mir-518d-3p chr19: 58929994-58930015 4453 CAAAGCGCTTCCCTTTGGAGC Yes Yes No No No hsa-mir-1308 chrX: 21990211-21990229 4454 CCACTGAACCACCCATGC No No No No No hsa-mir-92a-2* chrX: 133131278-133131300 4455 GTAATGCAACAAATCCCCACCC Yes Yes No No No hsa-mir-658 chr22: 36570239-36570264 4456 ACCAACGGACCTACTTCCCTCCGCC Yes No No Yes Yes hsa-mir-106b* chr7: 99529560-99529582 4457 GCAGCAAGTACCCACAGTGCGG Yes Yes Yes Yes Yes hsa-mir-374a* chrX: 73423854-73423876 4458 AATTACAATACAATCTGATAAG Yes Yes Yes No No hsa-mir-595 chr7: 158018185-158018206 4459 AGACACACCACGGCACACTTC Yes Yes No No No hsa-mir-518d-5p chr19: 58929957-58929979 4460 CTCTAGAGGGAAGCACTTTCTG Yes No No No No hsa-mir-590-5p chr7: 73243478-73243500 4461 GAGCTTATTCATAAAAGTGCAG Yes Yes Yes No No hsa-mir-448 chrX: 113964342-113964364 4462 TTGCATATGTAGGATGTCCCAT Yes Yes Yes Yes Yes hsa-mir-326 chr11: 74723799-74723819 4463 CTGGAGGAAGGGCCCAGAGG Yes No Yes Yes Yes hsa-mir-325 chrX: 76142279-76142302 4464 ACACTTACTGGACACCTACTAGG No Yes Yes Yes Yes hsa-mir-632 chr17: 27701300-27701319 4465 GTGTCTGCTTCCTGTGGGA Yes Yes Yes No No hsa-mir-328 chr16: 65793730-65793752 4466 ACGGAAGGGCAGAGAGGGCCAG Yes No Yes Yes Yes hsa-mir-329 chr14: 100563240-100563262 4467 AACACACCTGGTTAACCTCTTT Yes Yes Yes No Yes hsa-mir-329 chr14: 100562923-100562945 4468 AACACACCTGGTTAACCTCTTT Yes Yes Yes Yes Yes hsa-mir-659 chr22: 36573645-36573667 4469 TGGGGACCCTCCCTGAACCAAG Yes Yes No No No hsa-mir-214* chr1: 170374619-170374641 4470 GCACAGCAAGTGTAGACAGGCA Yes Yes Yes Yes Yes hsa-mir-483-3p chr11: 2111947-2111968 4471 AAGACGGGAGGAGAGGAGTGA No No Yes Yes Yes hsa-mir-376a* chr14: 100576877-100576899 4472 GTAGATTCTCCTTCTATGAGTA Yes Yes Yes Yes Yes hsa-mir-218-1* chr4: 20139062-20139084 4473 ATGGTTCCGTCAAGCACCATGG Yes Yes Yes Yes Yes hsa-mir-302d* chr4: 113788649-113788671 4474 GCAAGTGCCTCCATGTTAAAGT Yes Yes Yes Yes No hsa-mir-887 chr5: 15988337-15988359 4475 GTGAACGGGCGCCATCCCGAGG No Yes No No No hsa-mir-380* chr14: 100561110-100561132 4476 TGGTTGACCATAGAACATGCGC Yes Yes Yes Yes Yes hsa-mir-32* chr9: 110848331-110848353 4477 AAATATCACACACACTAAATTG Yes Yes Yes Yes Yes hsa-mir-889 chr14: 100584038-100584059 4478 TTAATATCGGACAACCATTGT Yes Yes Yes No No hsa-mir-768-5p chr16: 70349860-70349886 4479 ATCACTCCGTACTTTCATCCTCCAAC Yes Yes Yes No No hsa-mir-501-3p chrX: 49661119-49661141 4480 AATGCACCCGGGCAAGGATTCT Yes No Yes Yes Yes hsa-mir-485-3p chr14: 100591553-100591575 4481 GTCATACACGGCTCTCCTCTCT Yes Yes Yes Yes Yes hsa-mir-1234 chr8: 145596285-145596307 4482 GTGGGGTGGGTGGTCAGGCCGA Yes Yes No No No hsa-mir-22* chr17: 1563995-1564017 4483 TAAAGCTTGCCACTGAAGAACT Yes No Yes Yes Yes hsa-mir-125a-5p chr19: 56888332-56888356 4484 TCCCTGAGACCCTTTAACCTGTGA Yes Yes Yes Yes Yes hsa-mir-643 chr19: 57476921-57476943 4485 ACTTGTATGCTAGCTCAGGTAG Yes Yes No No No hsa-mir-147 chr9: 122047083-122047103 4486 GCAGAAGCATTTCCACACAC Yes Yes No Yes No hsa-mir-144 chr17: 24212691-24212711 4487 AGTACATCATCTATACTGTA Yes Yes Yes Yes Yes hsa-mir-145 chr5: 148790416-148790439 4488 GTCCAGTTTTCCCAGGAATCCCT Yes Yes Yes Yes Yes hsa-mir-143 chr5: 148788733-148788754 4489 TGAGATGAAGCACTGTAGCTC Yes Yes Yes Yes Yes hsa-mir-597 chr8: 9636606-9636628 4490 TGTGTCACTCGATGACCACTGT Yes Yes No No No hsa-mir-141 chr12: 6943578-6943600 4491 TAACACTGTCTGGTAAAGATGG Yes Yes Yes Yes Yes hsa-mir-512-5p chr19: 58864241-58864264 4492 CACTCAGCCTTGAGGGCACTTTC Yes Yes No No No hsa-mir-512-5p chr19: 58861757-58861780 4493 CACTCAGCCTTGAGGGCACTTTC Yes Yes No No No hsa-mir-323-5p chr14: 100561836-100561858 4494 AGGTGGTCCGTGGCGCGTTCGC Yes Yes Yes Yes Yes hsa-mir-224 chrX: 150877758-150877779 4495 AACGGAACCACTAGTGACTTG Yes Yes Yes Yes Yes hsa-mir-223 chrX: 65155503-65155525 4496 TGTCAGTTTGTCAAATACCCCA Yes Yes Yes Yes Yes hsa-mir-222 chrX: 45491385-45491406 4497 ACCCAGTAGCCAGATGTAGCT No Yes Yes Yes Yes hsa-mir-221 chrX: 45490551-45490574 4498 GAAACCCAGCAGACAATGTAGCT Yes Yes Yes Yes Yes hsa-mir-149 chr2: 241044104-241044127 4499 TCTGGCTCCGTGTCTTCACTCCC Yes Yes Yes Yes No hsa-mir-520a-3p chr19: 58885998-58886020 4500 AAAGTGCTTCCCTTTGGACTGT Yes Yes No No No hsa-mir-548c-5p chr12: 63302579-63302601 4501 AAAAGTAATTGCGGTTTTTGCC Yes Yes No No No hsa-mir-374b chrX: 73355146-73355168 4502 CACTTAGCAGGTTGTATTATAT Yes Yes Yes Yes Yes hsa-mir-26a chr12: 56504707-56504729 4503 AGCCTATCCTGGATTACTTGAA Yes Yes Yes Yes Yes hsa-mir-26a chr3: 37985907-37985929 4504 TTCAAGTAATCCAGGATAGGCT Yes Yes Yes Yes Yes hsa-mir-374a chrX: 73423884-73423906 4505 CACTTATCAGGTTGTATTATAA Yes Yes Yes Yes No hsa-mir-1302 chr9: 99165698-99165719 4506 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr15: 100318229-100318250 4507 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr12: 111617269-111617290 4508 TTTAGCATAAGTATGTCCCAA Yes No No No No hsa-mir-1302 chr8: 142865522-142865543 4509 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr2: 114057050-114057071 4510 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr1: 20300-20321 4511 TTGGGACATACTTATGCTAAA Yes Yes No No No hsa-mir-1302 chr7: 18133381-18133402 4512 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr19: 23044-23065 4513 TTGGGACATACTTATGCTAAA Yes Yes No No No hsa-mir-1302 chr2: 207842296-207842317 4514 TTTAGCATAAGTATGTCCCAA Yes Yes No No No hsa-mir-1302 chr9: 20215-20236 4515 TTGGGACATACTTATGCTAAA Yes Yes No No No hsa-mir-1302 chr20: 48664632-48664653 4516 TTTAGCATAAGTATGTCCCAA No No No No No hsa-mir-624* chr14: 30553662-30553684 4517 TGAACACAAGGTACTGGTACTA Yes Yes No No No hsa-mir-619 chr12: 107754827-107754851 4518 ACTGGGCACAAACATGTCCAGGTC Yes No No No No hsa-mir-586 chr6: 45273448-45273470 4519 GGACCTAAAAATACAATGCATA Yes Yes No No No hsa-mir-587 chr6: 107338707-107338728 4520 TTTCCATAGGTGATGAGTCAC Yes No No No No hsa-mir-584 chr5: 148422128-148422150 4521 CTCAGTCCCAGGCAAACCATAA Yes Yes No No No hsa-mir-30d* chr8: 135886303-135886325 4522 GCAGCAAACATCTGACTGAAAG Yes Yes Yes Yes Yes hsa-mir-450a chrX: 133502088-133502110 4523 ATATTAGGAACACATCGCAAAA Yes Yes Yes Yes Yes hsa-mir-450a chrX: 133502259-133502281 4524 ATATTAGGAACACATCGCAAAA Yes Yes Yes Yes Yes hsa-mir-583 chr5: 95440612-95440633 4525 CAAAGAGGAAGGTCCCATTAC Yes Yes No No No hsa-mir-580 chr5: 36183765-36183787 4526 CCTAATGATTCATCATTCTCAA Yes Yes No No No hsa-mir-581 chr5: 53283150-53283171 4527 ACTGATCTAGAGAACACAAGA Yes Yes No No No hsa-mir-129-3p chr11: 43559575-43559597 4528 AAGCCCTTACCCCAAAAAGCAT Yes Yes Yes Yes Yes hsa-mir-331-5p chr12: 94226351-94226373 4529 CTAGGTATGGTCCCAGGGATCC Yes Yes Yes Yes Yes hsa-mir-665 chr14: 100411164-100411184 4530 ACCAGGAGGCTGAGGCCCCT Yes Yes Yes Yes Yes hsa-mir-664 chr1: 218440513-218440536 4531 TGTAGGCTGGGGATAAATGAATA Yes Yes No Yes Yes hsa-mir-663 chr20: 26136878-26136900 4532 GCGGTCCCGCGGCGCCCCGCCT Yes No No No No hsa-mir-662 chr16: 760243-760264 4533 TCCCACGTTGTGGCCCAGCAG No Yes Yes Yes Yes hsa-mir-588 chr6: 126847484-126847505 4534 TTGGCCACAATGGGTTAGAAC Yes No No No No hsa-mir-589 chr7: 5502029-5502051 4535 CTCAGAGCAGACGTGGTTCTCA Yes Yes Yes No No hsa-mir-220a chrX: 122523693-122523714 4536 AAAGTGTCAGATACGGTGTGG Yes Yes No No No hsa-mir-220b chr19: 6446968-6446989 4537 CCACCACCGTGTCTGACACTT Yes Yes Yes Yes No hsa-mir-371-3p chr19: 58982781-58982804 4538 AAGTGCCGCCATCTTTTGAGTGT Yes Yes Yes No Yes hsa-mir-744 chr17: 11925950-11925972 4539 TGCGGGGCTAGGGCTAACAGCA Yes Yes Yes Yes No hsa-mir-934 chrX: 135460716-135460738 4540 TGTCTACTACTGGAGACACTGG Yes Yes No No No hsa-mir-628-5p chr15: 53452480-53452502 4541 CCTCTAGTAAATATGTCAGCAT Yes Yes Yes No Yes hsa-mir-888 chrX: 144884039-144884060 4542 TGACTGACAGCTTTTTGAGTA Yes Yes No No No hsa-mir-126* chr9: 138684888-138684909 4543 CATTATTACTTTTGGTACGCG Yes Yes Yes Yes Yes hsa-mir-99b* chr19: 56887720-56887742 4544 CAAGCTCGTGTCTGTGGGTCCG Yes Yes Yes Yes Yes hsa-mir-137 chr1: 98284234-98284257 4545 CTACGCGTATTCTTAAGCAATAA Yes Yes Yes Yes Yes hsa-mir-136 chr14: 100420805-100420828 4546 ACTCCATTTGTTTTGATGATGGA Yes Yes Yes Yes Yes hsa-mir-149* chr2: 241044145-241044166 4547 AGGGAGGGACGGGGGCTGTGC Yes Yes Yes Yes No hsa-mir-134 chr14: 100590783-100590805 4548 TGTGACTGGTTGACCAGAGGGG Yes Yes Yes Yes Yes hsa-mir-138 chr16: 55449939-55449962 4549 AGCTGGTGTTGTGAATCAGGCCG Yes Yes Yes Yes Yes hsa-mir-138 chr3: 44130729-44130752 4550 AGCTGGTGTTGTGAATCAGGCCG No No Yes Yes Yes hsa-mir-1269 chr4: 66825202-66825224 4551 CTGGACTGAGCCGTGCTACTGG Yes Yes No No No hsa-mir-1268 chr15: 20014622-20014640 4552 CCCCCACCACCACGCCCG No No No No No hsa-mir-196a* chr12: 52671849-52671871 4553 CGGCAACAAGAAACTGCCTGAG Yes Yes Yes Yes Yes hsa-mir-20b* chrX: 133131508-133131530 4554 CTGGAAGTGCCCATACTACAGT Yes Yes Yes No No hsa-mir-199a-3p chr19: 10789104-10789126 4555 TAACCAATGTGCAGACTACTGT Yes Yes Yes Yes Yes hsa-mir-199a-3p chr1: 170380316-170380338 4556 TAACCAATGTGCAGACTACTGT Yes Yes Yes Yes Yes hsa-mir-1263 chr3: 165372004-165372026 4557 ACTCAGTATGCCAGGGTACCAT Yes No No No No hsa-mir-1262 chr1: 68421846-68421868 4558 ATCCTTCTACAAATTCACCCAT Yes Yes No No No hsa-mir-1261 chr11: 90241995-90242014 4559 AAGCCAAAGCCTTATCCAT Yes Yes No No No hsa-mir-1260 chr14: 76802326-76802344 4560 ATCCCACCTCTGCCACCA Yes Yes No No No hsa-mir-1267 chr13: 106981565-106981586 4561 TGGGGATTACACTTCAACAGG Yes Yes No No No hsa-mir-151-5p chr8: 141811903-141811924 4562 ACTAGACTGTGAGCTCCTCGA Yes Yes Yes No No hsa-mir-1265 chr10: 14518593-14518615 4563 CAGGATGTGGTCAAGTGTTGTT Yes Yes No No No hsa-mir-1264 chrX: 113793426-113793449 4564 CAAGTCTTATTTGAGCACCTGTT Yes Yes Yes No Yes hsa-mir-125b-2* chr21: 16884480-16884502 4565 TCACAAGTCAGGCTCTTGGGAC Yes Yes Yes Yes Yes hsa-mir-33a* chr22: 40626938-40626960 4566 CAATGTTTCCACAGTGCATCAC Yes No Yes Yes Yes hsa-mir-339-5p chr7: 1029151-1029174 4567 CGTGAGCTCCTGGAGGACAGGGA Yes Yes Yes Yes No hsa-mir-708* chr11: 78790723-78790745 4568 CTAGAAGCTCACAGTCTAGTTG Yes Yes Yes Yes Yes hsa-mir-1255a chr4: 102470544-102470567 4569 AATCTACTTTCTTTGCTCATCCT Yes Yes No No No hsa-mir-1255b chr4: 36104421-36104443 4570 AACCACTTTCTTTGCTCATCCG Yes No No No No hsa-mir-1255b chr1: 166234526-166234548 4571 CGGATGAGCAAAGAAAGTGGTT Yes No No No No hsa-mir-7-1* chr9: 85774505-85774527 4572 TATGGCAGACTGTGATTTGTTG Yes Yes Yes Yes Yes hsa-mir-199b-3p chr9: 130046844-130046866 4573 TAACCAATGTGCAGACTACTGT Yes Yes Yes Yes No hsa-mir-641 chr19: 45480349-45480373 4574 GAGGTGACTCTATCCTATGTCTTT Yes No No No No hsa-mir-193a-3p chr17: 26911181-26911203 4575 AACTGGCCTACAAAGTCCCAGT Yes Yes Yes Yes Yes hsa-mir-186* chr1: 71305912-71305934 4576 CCCAAAAAATTCACCTTTGGGC Yes Yes Yes No Yes hsa-mir-139-5p chr11: 72003794-72003816 4577 CTGGAGACACGTGCACTGTAGA Yes Yes Yes Yes Yes hsa-mir-671-5p chr7: 150566467-150566490 4578 AGGAAGCCCTGGAGGGGCTGGAG Yes Yes Yes Yes Yes hsa-mir-582-3p chr5: 59035212-59035234 4579 GGTTCAGTTGTTCAACCAGTTA Yes Yes Yes Yes Yes hsa-mir-548d-5p chr17: 62898117-62898139 4580 GGCAAAAACCACAATTACTTTT Yes No No No No hsa-mir-548d-5p chr8: 124429505-124429527 4581 GGCAAAAACCACAATTACTTTT No Yes No No No hsa-mir-130b* chr22: 20337604-20337625 4582 ACTCTTTCCCTGTTGCACTAC Yes Yes Yes Yes Yes hsa-let-7f-1* chr9: 95978511-95978533 4583 CTATACAATCTATTGCCTTCCC Yes Yes Yes Yes Yes hsa-mir-767-3p chrX: 151312574-151312597 4584 AGAAACCATGGGGTATGAGCAGA No Yes Yes Yes Yes hsa-mir-363 chrX: 133131077-133131099 4585 TACAGATGGATACCGTGCAATT No Yes Yes Yes Yes hsa-mir-32 chr9: 110848372-110848394 4586 TGCAACTTAGTAATGTGCAATA Yes Yes Yes Yes Yes hsa-mir-31 chr9: 21502156-21502177 4587 AGCTATGCCAGCATCTTGCCT Yes Yes Yes Yes Yes hsa-mir-525-3p chr19: 58892649-58892671 4588 GAAGGCGCTTCCCTTTAGAGCG Yes Yes No No No hsa-mir-181d chr19: 13646723-13846746 4589 AACATTCATTGTTGTCGGTGGGT Yes Yes Yes Yes Yes hsa-mir-568 chr3: 115518071-115518091 4590 GTGTGTATACATTTATACAT Yes Yes Yes Yes Yes hsa-mir-548b-5p chr6: 119431961-119431983 4591 GGCCAAAACCACAATTACTTTT Yes No No No No hsa-mir-559 chr2: 47458332-47458353 4592 TAAAGTAAATATGCACCAAAA Yes No No No No hsa-mir-559 chr2: 47458372-47458393 4593 TTTTGGTGCATATTTACTTTA Yes No No No No hsa-mir-181a chr9: 126494579-126494602 4594 AACATTCAACGCTGTCGGTGAGT Yes Yes Yes Yes Yes hsa-mir-181a chr1: 197094859-197094882 4595 ACTCACCGACAGCGTTGAATGTT Yes Yes Yes Yes Yes hsa-mir-181b chr9: 126495824-126495847 4596 AACATTCATTGCTGTCGGTGGGT Yes Yes Yes Yes Yes hsa-mir-181b chr1: 197094676-197094699 4597 ACCCACCGACAGCAATGAATGTT Yes Yes Yes Yes Yes hsa-mir-181c chr19: 13646538-13846560 4598 AACATTCAACCTGTCGGTGAGT Yes Yes Yes Yes Yes hsa-mir-34b* chr11: 110888884-110888907 4599 TAGGCAGTGTCATTAGCTGATTG Yes Yes Yes Yes Yes hsa-mir-188-5p chrX: 49654862-49654883 4600 CATCCCTTGCATGGTGGAGGG Yes Yes Yes Yes Yes hsa-mir-367 chr4: 113788481-113788503 4601 TCACCATTGCTAAAGTGCAATT Yes Yes Yes Yes No hsa-mir-365 chr17: 26926609-26926631 4602 TAATGCCCCTAAAAATCCTTAT Yes Yes Yes Yes Yes hsa-mir-365 chr16: 14310697-14310719 4603 TAATGCCCCTAAAAATCCTTAT Yes Yes Yes Yes Yes hsa-mir-449b chr5: 54502290-54502312 4604 GCCAGCTAACAATACACTGCCT Yes Yes Yes No Yes hsa-mir-29a* chr7: 130212084-130212106 4605 CTGAACACCAAAAGAAATCAGT Yes Yes Yes Yes Yes hsa-let-7c* chr21: 16834050-16834072 4606 TAGAGTTACACCCTGGGAGTTA Yes Yes Yes Yes Yes hsa-mir-558 chr2: 32610783-32610802 4607 TGAGCTGCTGTACCAAAAT Yes Yes No No No hsa-mir-10a* chr17: 44012224-44012246 4608 TATTCCCCTAGATACGAATTTG Yes Yes Yes Yes Yes hsa-mir-518e* chr19: 58924918-58924940 4609 CTCTAGAGGGAAGCGCTTTCTG Yes Yes No No No hsa-mir-561 chr2: 188870523-188870545 4610 CAAAGTTTAAGATCCTTGAAGT Yes Yes No No No hsa-mir-562 chr2: 232745666-232745686 4611 AAAGTAGCTGTACCATTTGC Yes Yes No No No hsa-mir-563 chr3: 15890332-15890351 4612 AGGTTGACATACGTTTCCC Yes No No No No hsa-mir-361-5p chrX: 85045341-85045363 4613 GTACCCCTGGAGATTCTGATAA Yes Yes Yes Yes Yes hsa-mir-566 chr3: 50185777-50185796 4614 GGGCGCCTGTGATCCCAAC Yes Yes No No No hsa-mir-567 chr3: 113314352-113314375 4615 AGTATGTTCTTCCAGGACAGAAC Yes No No No No hsa-mir-642 chr19: 50870040-50870062 4616 GTCCCTCTCCAAATGTGTCTTG Yes Yes No No No hsa-mir-192* chr11: 64415206-64415226 4617 CTGTGACCTATGGAATTGGCAG Yes Yes Yes Yes No hsa-mir-92a-1* chr13: 90801578-90801601 4618 AGGTTGGGATCGGTTGCAATGCT Yes No Yes No No hsa-mir-27a* chr19: 13808300-13808322 4619 TGCTCACAAGCAGCTAAGCCCT Yes Yes Yes Yes Yes hsa-mir-564 chr3: 44878398-44878417 4620 AGGCACGGTGTCAGCAGGC Yes Yes No No No hsa-mir-106a* chrX: 133131903-133131925 4621 GTAAGAAGTGCTTACATTGCAG Yes Yes Yes No No hsa-mir-26a-1* chr3: 37985946-37985968 4622 CCTATTCTTGGTTACTTGCACG Yes Yes Yes Yes Yes hsa-mir-498 chr19: 58869295-58869318 4623 TTTCAAGCCAGGGGGCGTTTTTC Yes Yes No No No hsa-mir-454* chr17: 54569970-54569992 4624 GCAGAGACAATATTGATAGGGT Yes Yes Yes No No hsa-mir-502-5p chrX: 49665960-49665981 4625 ATCCTGCTATCTGGGTGCTA Yes Yes Yes Yes Yes hsa-mir-218-2* chr5: 168127750-168127772 4626 CGCGGTGCTTGACAGAACCATG Yes Yes Yes Yes Yes hsa-mir-30c-2* chr6: 72143387-72143409 4627 AGAGTAAACAGCCTTCTCCCAG Yes Yes Yes Yes Yes hsa-mir-526b* chr19: 58889508-58889530 4628 GAAAGTGCTTCCTTTTAGAGGC Yes Yes No No No hsa-mir-542-5p chrX: 133503095-133503118 4629 TCTCGTGACATGATGATCCCCGA No Yes Yes Yes Yes hsa-mir-433 chr14: 100418038-100418060 4630 ATCATGATGGGCTCCTCGGTGT Yes Yes Yes Yes Yes hsa-mir-27a chr19: 13808260-13808281 4631 GCGGAACTTAGCCACTGTGAA Yes Yes Yes Yes Yes hsa-mir-27b chr9: 96887607-96887628 4632 TTCACAGTGGCTAAGTTCTGC Yes Yes Yes Yes Yes hsa-mir-330- chr19: 50834106-50834129 4633 TCTCTGCAGGCCGTGTGCTTTGC Yes Yes Yes Yes Yes 3p hsa-mir-431 chr14: 100417115-100417136 4634 TGTCTTGCAGGCCGTCATGCA Yes Yes Yes Yes Yes hsa-mir-520c- chr19: 58902533-58902555 4635 CTCTAGAGGGAAGCACTTTCTG Yes No No No No 5p hsa-mir-708 chr11: 78790768-78790791 4636 CCCAGCTAGATTGTAAGCTCCTT Yes Yes Yes Yes Yes hsa-mir-17* chr13: 90800909-90800931 4637 ACTGCAGTGAAGGCACTTGTAG Yes No Yes Yes Yes hsa-mir-1197 chr14: 100561709-100561730 4638 TAGGACACATGGTCTACTTCT Yes Yes Yes Yes Yes hsa-mir-548a-5p chr8: 105565823-105565845 4639 GGTAAAACTCGCAATTACTTTT No Yes No No No hsa-mir-1248 chr3: 187987157-187987184 4640 ACCTTCTTGTATAAGCACTGTGCTAAA Yes Yes Yes Yes Yes hsa-mir-208b chr14: 22957045-22957067 4641 ACAAACCTTTTGTTCGTCTTAT Yes Yes Yes Yes Yes hsa-mir-208a chr14: 22927650-22927672 4642 ACAAGCTTTTTGCTCGTCTTAT Yes Yes Yes Yes Yes hsa-mir-499-5p chr20: 33041871-33041892 4643 TTAAGACTTGCAGTGATGTTT Yes Yes Yes Yes Yes hsa-mir-29b-1* chr7: 130212805-130212829 4644 TCTAAACCACCATATGAAACCAGC Yes Yes Yes Yes Yes hsa-mir-378* chr5: 149092584-149092606 4645 CTCCTGACTCCAGGTCCTGTGT Yes Yes Yes No Yes hsa-mir-16-1* chr13: 49521121-49521143 4646 TCAGCAGCACAGTTAATACTGG Yes Yes Yes Yes No hsa-mir-338-3p chr17: 76714281-76714303 4647 CAACAAAATCACTGATGCTGGA Yes Yes Yes Yes Yes hsa-mir-145* chr5: 148790454-148790476 4648 GGATTCCTGGAAATACTGTTCT Yes Yes Yes Yes Yes hsa-mir-337 chr14: 100410642-100410664 4649 CTCCTATATGATGCCTTTCTTC Yes Yes No Yes Yes 3p hsa-mir-593* chr7: 127509163-127509188 4650 AGGCACCAGCCAGGCATTGCTCAGC Yes No No No No hsa-mir-130a chr11: 57165300-57165322 4651 CAGTGCAATGTTAAAAGGGCAT Yes Yes Yes Yes Yes hsa-mir-627 chr15: 40279119-40279141 4652 TCCTCTTTTCTTAGAGACTCAC Yes Yes No No No hsa-mir-892b chrX: 144886417-144886439 4653 TCTACCCAGAAAGGAGCCAGTG Yes Yes No No No hsa-mir-892a chrX: 144885888-144885909 4654 CTACGCAGAAAGGACACAGTG Yes Yes No No No hsa-mir-548n chr7: 34946940-34946962 4655 ACAAAATCCACAATTACTTTTG Yes No No No No hsa-mir-768- chr16: 70349813-70349841 4656 GTCAGCAGTTTGAGTGTCAGCATTGTGA Yes Yes Yes No No 3p hsa-mir-630 chr15: 70666671-70666693 4657 AGTATTCTGTACCAGGGAAGGT Yes Yes No No No hsa-mir-631 chr15: 73433043-73433064 4658 GCTGAGGTCTGGGCCAGGTCT Yes Yes Yes No No hsa-mir-1287 chr10: 100145017-100145039 4659 GACTCGAACCACTGATCCAGCA Yes Yes Yes No No hsa-mir-633 chr17: 58375367-58375390 4660 CTAATAGTATCTACCACAATAAA Yes Yes No No No hsa-mir-1281 chr22: 39818494-39818511 4661 TCGCCTCCTCCTCTCCC Yes Yes Yes Yes Yes hsa-mir-635 chr17: 63932246-63932269 4662 GGACATTGTTTCAGTGCCCAAGT Yes No No No No hsa-mir-636 chr17: 72244142-72244165 4663 TGCGGGCGGGACGAGCAAGCACA Yes Yes No No No hsa-mir-637 chr19: 3912426-3912450 4664 ACGCAGAGCCCGAAAGCCCCCAGT Yes No No No No hsa-mir-638 chr19: 10690094-10690119 4665 AGGGATCGCGGGCGGGTGGCGGCCT No Yes Yes No No hsa-mir-639 chr19: 14501414-14501437 4666 ATCGCTGCGGTTGCGAGCGCTGT No No No No No hsa-mir-1289 chr5: 132791205-132791228 4667 AAAATGCAGATTCCTGGACTCCA Yes Yes No No No hsa-mir-1289 chr20: 33505225-33505248 4668 AAAATGCAGATTCCTGGACTCCA Yes Yes No No No hsa-mir-1288 chr17: 16126096-16126117 4669 TGGACTGCCCTGATCTGGAGA Yes Yes No No No hsa-mir-548j chr22: 25281239-25281261 4670 ACCAAAGACCGCAATTACTTTT Yes No No No No hsa-mir-518b chr19: 58897852-58897874 4671 CAAAGCGCTCCCCTTTAGAGGT Yes Yes No No No hsa-let-7c chr21: 16834028-16834050 4672 TGAGGTAGTAGGTTGTATGGTT Yes Yes Yes Yes Yes hsa-let-7a chr22: 44887295-44887317 4673 TGAGGTAGTAGGTTGTATAGTT Yes Yes Yes Yes Yes hsa-let-7a chr11: 121522485-121522507 4674 AACTATACAACCTACTACCTCA Yes Yes Yes Yes Yes hsa-let-7a chr9: 95978064-95978086 4675 TGAGGTAGTAGGTTGTATAGTT Yes Yes Yes Yes Yes hsa-let-7f chrX: 53600931-53600953 4676 AACTATACAATCTACTACCTCA Yes Yes Yes Yes Yes hsa-let-7f chr9: 95978455-95978477 4677 TGAGGTAGTAGATTGTATAGTT Yes Yes Yes Yes Yes hsa-let-7g chr3: 52277391-52277413 4678 AACTGTACAAACTACTACCTCA Yes Yes Yes Yes No hsa-let-7d chr9: 95980943-95980965 4679 AGAGGTAGTAGGTTGCATAGTT Yes Yes Yes Yes Yes hsa-let-7e chr19: 56887857-56887879 4680 TGAGGTAGGAGGTTGTATAGTT Yes Yes Yes Yes Yes hsa-mir-516a- chr19: 58956258-58956276 4681 TGCTTCCTTTCAGAGGGT Yes No No No No 3p hsa-mir-516a- chr19: 58951866-58951884 4682 TGCTTCCTTTCAGAGGGT Yes No No No No 3p hsa-let-7i chr12: 61283737-61283759 4683 TGAGGTAGTAGTTTGTGCTGTT Yes Yes Yes Yes Yes hsa-mir-503 chrX: 133508066-133508089 4684 CTGCAGAACTGTTCCCGCTGCTA Yes Yes Yes Yes Yes hsa-mir-494 chr14: 100565770-100565792 4685 TGAAACATACACGGGAAACCTC Yes Yes Yes Yes Yes hsa-mir-519b- chr19: 58890328-58890350 4686 AAAGTGCATCCTTTTAGAGGTT Yes Yes No No No 3p hsa-mir-1207- chr8: 129130586-129130607 4687 TGGCAGGGAGGCTGGGAGGGG Yes No No No No 5p hsa-let-7b* chr22: 44888288-44888310 4688 CTATACAACCTACTGCCTTCCC Yes Yes Yes Yes Yes hsa-mir-181a* chr1: 197094820-197094842 4689 GGTACAATCAACGGTCGATGGT Yes Yes Yes Yes Yes hsa-mir-548e chr10: 112738725-112738747 4690 AAAAACTGAGACTACTTTTGCA Yes No No No No hsa-mir-125b chr21: 16884443-16884465 4691 TCCCTGAGACCCTAACTTGTGA Yes Yes Yes Yes Yes hsa-mir-125b chr11: 121475726-121475748 4692 TCACAAGTTAGGGTCTCAGGGA Yes Yes Yes Yes Yes hsa-mir-9* chr1: 154656769-154656791 4693 ACTTTCGGTTATCTAGCTTTAT Yes Yes Yes Yes Yes hsa-mir-9* chr5: 87998439-87998461 4694 ACTTTCGGTTATCTAGCTTTAT Yes Yes Yes Yes Yes hsa-mir-9* chr15: 87712305-87712327 4695 ATAAAGCTAGATAACCGAAAGT Yes No Yes Yes Yes hsa-mir-301b chr22: 20337313-20337336 4696 CAGTGCAATGATATTGTCAAAGC Yes Yes Yes Yes Yes hsa-mir-301a chr17: 54583291-54583314 4697 GCTTTGACAATACTATTGCACTG Yes Yes Yes Yes Yes hsa-mir-98 chrX: 53599984-53600006 4698 AACAATACAACTTACTACCTCA Yes Yes Yes Yes Yes hsa-mir-550* chr7: 30295994-30296016 4699 TGTCTTACTCCCTCAGGCACAT Yes Yes No No No hsa-mir-550* chr7: 32739177-32739199 4700 TGTCTTACTCCCTCAGGCACAT Yes Yes No No No hsa-mir-505* chrX: 138834020-138834042 4701 ACATCAATACTTCCTGGCTCCC Yes Yes Yes Yes Yes hsa-mir-142-3p chr17: 53763604-53763627 4702 TCCATAAAGTAGGAAACACTACA Yes Yes Yes Yes Yes hsa-mir-487a chr14: 100588583-100588605 4703 AATCATACAGGGACATCCAGTT Yes Yes Yes No No hsa-mir-93 chr7: 99529373-99529396 4704 CTACCTGCACGAACAGCACTTTG Yes Yes Yes Yes Yes hsa-mir-95 chr4: 8057938-8057960 4705 TGCTCAATAAATACCCGTTGAA Yes Yes Yes No No hsa-mir-96 chr7: 129201814-129201837 4706 AGCAAAAATGTGCTAGTGCCAAA Yes Yes Yes Yes Yes hsa-mir-200c* chr12: 6943126-6943148 4707 CGTCTTACCCAGCAGTGTTTGG No Yes Yes Yes Yes hsa-mir-527 chr19: 58949096-58949116 4708 CTGCAAAGGGAAGCCCTTTC Yes No No No No hsa-mir-521 chr19: 58943754-58943776 4709 AACGCACTTCCCTTTAGAGTGT Yes No No No No hsa-mir-521 chr19: 58911712-58911734 4710 AACGCACTTCCCTTTAGAGTGT Yes No No No No hsa-mir-127-3p chr14: 100419124-100419146 4711 TCGGATCCGTCTGAGCTTGGCT Yes Yes Yes Yes Yes hsa-mir-523 chr19: 58893502-58893525 4712 GAACGCGCTTCCCTATAGAGGGT Yes No No No No hsa-mir-135b chr1: 203684111-203684134 4713 TCACATAGGAATGAAAAGCCATA Yes Yes Yes Yes Yes hsa-mir-135a chr3: 52303325-52303348 4714 TCACATAGGAATAAAAAGCCATA Yes Yes Yes Yes Yes hsa-mir-135a chr12: 96481742-96481765 4715 TATGGCTTTTTATTCCTATGTGA Yes Yes Yes Yes Yes hsa-mir-146b-5p chr10: 104186266-104186288 4716 TGAGAACTGAATTCCATAGGCT Yes No Yes Yes Yes hsa-mir-509-3p chrX: 146148871-146148893 4717 CTACCCACAGACGTACCAATCA Yes Yes No No No hsa-mir-509-3p chrX: 146147984-146148006 4718 CTACCCACAGACGTACCAATCA Yes Yes No No No hsa-mir-509-39 chrX: 146149759-146149781 4719 CTACCCACAGACGTACCAATCA Yes Yes No No No hsa-mir-33b* chr17: 17657895-17657917 4720 GGGCTGCACTGCCGAGGCACTG Yes Yes Yes No No hsa-mir-744* chr17: 11926007-11926029 4721 CTGTTGCCACTAACCTCAACCT Yes Yes Yes Yes No hsa-mir-1274a chr5: 41511503-41511521 4722 GTCCCTGTTCAGGCGCCA Yes Yes No No No hsa-mir-532-5p chrX: 49654512-49654534 4723 CATGCCTTGAGTGTAGGACCGT Yes Yes Yes Yes Yes hsa-mir-1274b chr19: 62716222-62716239 4724 TGGCGCCCGAACAGGGA Yes No No No No hsa-let-71* chr12: 61283793-61283815 4725 CTGCGCAAGCTACTGCCTTGCT Yes Yes No Yes Yes hsa-mir-132 chr17: 1899972-1899994 4726 CGACCATGGCTGTAGACTGTTA No Yes Yes Yes Yes hsa-mir-20a* chr13: 90801362-90801384 4727 ACTGCATTATGAGCACTTAAAG Yes No Yes Yes Yes hsa-mir-23a chr19: 13808408-13808429 4728 GGAAATCCCTGGCAATGTGAT Yes Yes Yes Yes Yes hsa-mir-23b chr9: 96887367-96887388 4729 ATCACATTGCCAGGGATTACC Yes Yes Yes Yes Yes hsa-mir-542-3p chrX: 133503059-133503081 4730 TTTCAGTTATCAATCTGTCACA No Yes Yes Yes Yes hsa-mir-148b chr12: 53017328-53017350 4731 TCAGTGCATCACAGAACTTTGT Yes Yes Yes Yes Yes hsa-mir-148a chr7: 25956066-52956088 4732 ACAAAGTTCTGTAGTGCACTGA Yes Yes Yes Yes No hsa-mir-886-3p chr5: 135444086-135444107 4733 AAGGGTCAGTAAGCACCCGCG Yes Yes No No No hsa-mir-24 chr19: 13808102-13808124 4734 CTGTTCCTGCTGAACTGAGCCA Yes Yes Yes Yes Yes hsa-mir-24 chr9: 96888166-96888188 4735 TGGCTCAGTTCAGCAGGAACAG Yes Yes Yes Yes Yes hsa-mir-330-5p chr19: 50834146-50834168 4736 GCCTAAGACACAGGCCCAGAGA Yes Yes Yes Yes Yes hsa-mir-497* chr17: 6861980-6862002 4737 TCTAACACCACAGTGTGGTTTG Yes Yes Yes Yes Yes hsa-mir-451 chr17: 24212546-24212568 4738 AACTCAGTAATGGTAACGGTTT Yes Yes Yes Yes Yes hsa-mir-452 chrX: 150878805-150878827 4739 TCAGTTTCCTCTGCAAACAGTT Yes Yes Yes Yes No hsa-mir-340* chr5: 179374924-179374946 4740 GCTATAAAGTAACTGAGACGGA Yes Yes Yes Yes No hsa-mir-454 chr17: 54569929-54569952 4741 ACCCTATAAGCAATATTGCACTA Yes Yes Yes No No hsa-mir-890 chrX: 144883530-144883551 4742 CAACTGATGCCTTTCCAAGTA Yes No No No No hsa-mir-135b* chr1: 203684073-203684095 4743 CCCATGGCTTTTAGCCCTACAT Yes Yes Yes Yes Yes hsa-mir-875-3p chr8: 100618200-100618221 4744 CACAACCTCAGTGTTTCCAGG Yes Yes Yes No No hsa-mir-541* chr14: 100600593-100600618 4745 AAAGGATTCTGCTGTCGGTCCCACT No Yes No No No hsa-mir-26a-2* chr12: 56504669-56504691 4746 GAAACAAGTAATCAAGAATAGG Yes Yes Yes No No hsa-mir-302c* chr4: 113789006-113789028 4747 CAGCAGGTACCCCCATGTTAAA Yes Yes Yes Yes No hsa-mir-885-3p chr3: 10411182-10411204 4748 TATCCACTACACCCCGCTGCCT Yes Yes Yes No No hsa-mir-450b-3p chrX: 133501889-133501911 4749 TATGGATGCAAAATGATCCCAA Yes Yes Yes No No hsa-mir-296-5p chr20: 56826110-56826131 4750 ACAGGATTGAGGGGGGGCCCT Yes Yes No Yes Yes hsa-mir-221* chrX: 45490592-45490614 4751 AAATCTACATTGTATGCCAGGT Yes Yes Yes Yes Yes hsa-mir-100* chr11: 121528157-121528179 4752 CATACCTATAGATACAAGCTTG Yes Yes Yes Yes Yes hsa-mir-302b* chr4: 113789130-113789152 4753 GAAAGCACTTCCATGTTAAAGT Yes Yes Yes No No hsa-mir-487b chr14: 100582594-100582616 4754 AATCGTACAGGGTCATCCACTT Yes Yes Yes Yes Yes hsa-mir-607 chr10: 98578430-98578451 4755 GTTATAGATCTGGATTTGAAC Yes No No No No hsa-mir-625* chr14: 65007623-65007645 4756 GACTATAGAACTTTCCCCCTCA Yes No No No No hsa-mir-625* chr14: 65007684-65007606 4757 TGAGGGGGAAAGTTCTATAGTC Yes No No No No hsa-mir-141* chr12: 6943536-6943558 4758 CATCTTCCAGTACAGTGTTGGA Yes Yes Yes Yes Yes hsa-mir-606 chr10: 76982281-76982302 4759 AAACTACTGAAAATCAAAGAT Yes Yes No No No hsa-mir-155* chr21: 25868204-25868226 4760 CTCCTACATATTAGCATTAACA Yes Yes Yes No No hsa-mir-146a chr5: 159844956-159844978 4761 TGAGAACTGAATTCCATGGGTT Yes Yes Yes Yes Yes hsa-mir-1183 chr7: 21477247-21477244 4762 CACTGTAGGTGATGGTGAGAGTGGGCA Yes Yes No No No 

1. An isolated nucleic acid, wherein the nucleic acid: (a) consists of from about 14 to about 31 nucleotides in length; (b) exhibits expression in a human tissue; (c) has a nucleotide sequence not present in an exon; and (d) consists essentially of a nucleotide sequence selected from the group consisting of SEQ ID NOS: 1-130 and 1094, and a nucleotide sequence which is about 97%, about 98%, or about 99% identical to a nucleic acid sequence comprising any one of SEQ ID NOS: 1-130 and
 1094. 2. An isolated nucleic acid, wherein the nucleic acid: (a) consists of from about 14 to about 31 nucleotides in length; (b) exhibits expression in a human tissue; (c) has a nucleotide sequence not present in an exon; and (d) consists essentially of a nucleotide sequence selected from the group consisting of SEQ ID NOS: 131-401, and a nucleotide sequence which is about 97%, about 98%, or about 99% identical to a nucleic acid sequence having a SEQ ID NO: 131-401.
 3. An isolated nucleic acid that is complementary to a nucleic acid of claim 1 or
 2. 4. An isolated nucleic acid that is complementary to all but 1, 2, 3, 4, or 5 nucleotides of the nucleic acid of claim 1 or
 2. 5. The nucleic acid of claim 3, wherein the nucleic acid is complementary to at least 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, or 31 contiguous nucleotides of the nucleic acid of claim
 1. 6. The nucleic acid of claim 3, wherein the nucleic acid is complementary to at least 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, or 31 contiguous nucleotides of the nucleic acid of claim
 2. 7. The nucleic acid of claim 1 or 2, wherein the nucleic acid is single stranded.
 8. The nucleic acid of claim 3, wherein the nucleic acid is single stranded.
 9. The nucleic acid of claim 4, wherein the nucleic acid is single stranded.
 10. The nucleic acid of claim 1 or 2, wherein the nucleic acid is double stranded.
 11. The nucleic acid of claim 3, wherein the nucleic acid is double stranded.
 12. The nucleic acid of claim 4, wherein the nucleic acid is double stranded.
 13. The nucleic acid of claim 1 or 2, wherein the human tissue comprises a lymphocyte.
 14. The nucleic acid of claim 1 or 2, wherein the human tissue is a B cell.
 15. The nucleic acid of claim 14, wherein the B cell comprises a Naïve B cell, a centroblast, a memory B cell, or a Ramos Burkitt Lymphoma cell.
 16. A composition comprising one or more nucleic acids of claim 1, 2, 3, or 4, in any combination or permutation thereof.
 17. A composition comprising one or more nucleic acids, wherein the one or more nucleic acids consist essentially of a nucleotide sequence of any one of SEQ ID NOS: 1-401 and
 1094. 18. The composition of claim 16, further comprising one or more carriers, excipients, solvents, bases, or a combination thereof.
 19. The composition of claim 17, further comprising one or more carriers, excipients, solvents, bases, or a combination thereof.
 20. A method for modulating the activity of a target nucleic acid in a cell, the method comprising contacting a cell with a nucleic acid of claim 1, 2, 3, or
 4. 21. The method of claim 20, wherein the target nucleic acid is a mRNA, a mature miRNA, or a precursor to a mature miRNA.
 22. The method of claim 20, wherein the cell is a hematopoetic cell.
 23. The method of claim 20, wherein the cell is a B cell.
 24. The method of claim 20, wherein the cell is in vitro or in vivo. 